-- dump date 20140620_020916 -- class Genbank::misc_feature -- table misc_feature_note -- id note 349106000001 Replicase family; Region: Replicase; pfam03090 349106000002 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 349106000003 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; cd00569 349106000004 Winged helix-turn helix; Region: HTH_29; pfam13551 349106000005 DNA-binding interface [nucleotide binding]; DNA binding site 349106000006 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 349106000007 Methyltransferase domain; Region: Methyltransf_26; pfam13659 349106000008 Helix-turn-helix domain; Region: HTH_17; cl17695 349106000009 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 349106000010 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 349106000011 non-specific DNA binding site [nucleotide binding]; other site 349106000012 salt bridge; other site 349106000013 sequence-specific DNA binding site [nucleotide binding]; other site 349106000014 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349106000015 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 349106000016 catalytic residues [active] 349106000017 catalytic nucleophile [active] 349106000018 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 349106000019 Sel1-like repeats; Region: SEL1; smart00671 349106000020 Sel1-like repeats; Region: SEL1; smart00671 349106000021 Sel1-like repeats; Region: SEL1; smart00671 349106000022 Sel1-like repeats; Region: SEL1; smart00671 349106000023 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 349106000024 Integrase core domain; Region: rve; pfam00665 349106000025 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 349106000026 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 349106000027 Replication protein; Region: Rep_1; pfam01446 349106000028 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 349106000029 DnaA N-terminal domain; Region: DnaA_N; pfam11638 349106000030 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 349106000031 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 349106000032 Walker A motif; other site 349106000033 ATP binding site [chemical binding]; other site 349106000034 Walker B motif; other site 349106000035 arginine finger; other site 349106000036 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 349106000037 DnaA box-binding interface [nucleotide binding]; other site 349106000038 DNA polymerase III subunit beta; Validated; Region: PRK05643 349106000039 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 349106000040 putative DNA binding surface [nucleotide binding]; other site 349106000041 dimer interface [polypeptide binding]; other site 349106000042 beta-clamp/clamp loader binding surface; other site 349106000043 beta-clamp/translesion DNA polymerase binding surface; other site 349106000044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106000045 Walker A/P-loop; other site 349106000046 ATP binding site [chemical binding]; other site 349106000047 Q-loop/lid; other site 349106000048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106000049 Walker B; other site 349106000050 D-loop; other site 349106000051 H-loop/switch region; other site 349106000052 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 349106000053 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 349106000054 Mg2+ binding site [ion binding]; other site 349106000055 G-X-G motif; other site 349106000056 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 349106000057 anchoring element; other site 349106000058 dimer interface [polypeptide binding]; other site 349106000059 ATP binding site [chemical binding]; other site 349106000060 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 349106000061 active site 349106000062 putative metal-binding site [ion binding]; other site 349106000063 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349106000064 Domain of unknown function DUF; Region: DUF204; pfam02659 349106000065 Domain of unknown function DUF; Region: DUF204; pfam02659 349106000066 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 349106000067 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 349106000068 S-adenosylmethionine binding site [chemical binding]; other site 349106000069 enoyl-CoA hydratase; Provisional; Region: PRK06563 349106000070 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 349106000071 substrate binding site [chemical binding]; other site 349106000072 oxyanion hole (OAH) forming residues; other site 349106000073 trimer interface [polypeptide binding]; other site 349106000074 Predicted permeases [General function prediction only]; Region: COG0679 349106000075 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 349106000076 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 349106000077 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349106000078 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106000079 Coenzyme A binding pocket [chemical binding]; other site 349106000080 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 349106000081 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 349106000082 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000083 homodimer interface [polypeptide binding]; other site 349106000084 catalytic residue [active] 349106000085 BCCT family transporter; Region: BCCT; pfam02028 349106000086 GMP synthase; Reviewed; Region: guaA; PRK00074 349106000087 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 349106000088 AMP/PPi binding site [chemical binding]; other site 349106000089 candidate oxyanion hole; other site 349106000090 catalytic triad [active] 349106000091 potential glutamine specificity residues [chemical binding]; other site 349106000092 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 349106000093 ATP Binding subdomain [chemical binding]; other site 349106000094 Ligand Binding sites [chemical binding]; other site 349106000095 Dimerization subdomain; other site 349106000096 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349106000097 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349106000098 NAD(P) binding site [chemical binding]; other site 349106000099 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 349106000100 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 349106000101 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 349106000102 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 349106000103 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349106000104 peptide binding site [polypeptide binding]; other site 349106000105 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 349106000106 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349106000107 peptide binding site [polypeptide binding]; other site 349106000108 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 349106000109 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349106000110 peptide binding site [polypeptide binding]; other site 349106000111 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 349106000112 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 349106000113 dimer interface [polypeptide binding]; other site 349106000114 conserved gate region; other site 349106000115 putative PBP binding loops; other site 349106000116 ABC-ATPase subunit interface; other site 349106000117 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 349106000118 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349106000119 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 349106000120 dimer interface [polypeptide binding]; other site 349106000121 conserved gate region; other site 349106000122 ABC-ATPase subunit interface; other site 349106000123 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 349106000124 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349106000125 Walker A/P-loop; other site 349106000126 ATP binding site [chemical binding]; other site 349106000127 Q-loop/lid; other site 349106000128 ABC transporter signature motif; other site 349106000129 Walker B; other site 349106000130 D-loop; other site 349106000131 H-loop/switch region; other site 349106000132 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349106000133 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 349106000134 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349106000135 Walker A/P-loop; other site 349106000136 ATP binding site [chemical binding]; other site 349106000137 Q-loop/lid; other site 349106000138 ABC transporter signature motif; other site 349106000139 Walker B; other site 349106000140 D-loop; other site 349106000141 H-loop/switch region; other site 349106000142 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349106000143 hypothetical protein; Provisional; Region: PRK10215 349106000144 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 349106000145 Nitronate monooxygenase; Region: NMO; pfam03060 349106000146 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 349106000147 FMN binding site [chemical binding]; other site 349106000148 substrate binding site [chemical binding]; other site 349106000149 putative catalytic residue [active] 349106000150 Protein of unknown function (DUF511); Region: DUF511; pfam04373 349106000151 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 349106000152 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 349106000153 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 349106000154 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 349106000155 active site 349106000156 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 349106000157 hypothetical protein; Provisional; Region: PRK11568 349106000158 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 349106000159 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 349106000160 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 349106000161 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 349106000162 RNA binding surface [nucleotide binding]; other site 349106000163 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 349106000164 active site 349106000165 uracil binding [chemical binding]; other site 349106000166 Disulfide bond isomerase protein N-terminus; Region: DsbC_N; pfam10411 349106000167 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 349106000168 dimerization domain [polypeptide binding]; other site 349106000169 dimer interface [polypeptide binding]; other site 349106000170 catalytic residues [active] 349106000171 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 349106000172 chaperone protein DnaJ; Provisional; Region: PRK10767 349106000173 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 349106000174 HSP70 interaction site [polypeptide binding]; other site 349106000175 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 349106000176 substrate binding site [polypeptide binding]; other site 349106000177 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 349106000178 Zn binding sites [ion binding]; other site 349106000179 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 349106000180 dimer interface [polypeptide binding]; other site 349106000181 dihydrodipicolinate reductase; Provisional; Region: PRK00048 349106000182 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 349106000183 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 349106000184 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 349106000185 active site 349106000186 catalytic residues [active] 349106000187 metal binding site [ion binding]; metal-binding site 349106000188 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 349106000189 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 349106000190 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349106000191 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106000192 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106000193 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 349106000194 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 349106000195 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 349106000196 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 349106000197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349106000198 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349106000199 ABC transporter; Region: ABC_tran_2; pfam12848 349106000200 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349106000201 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 349106000202 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 349106000203 HSP70 interaction site [polypeptide binding]; other site 349106000204 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 349106000205 substrate binding site [polypeptide binding]; other site 349106000206 dimer interface [polypeptide binding]; other site 349106000207 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 349106000208 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 349106000209 serine/threonine transporter SstT; Provisional; Region: PRK13628 349106000210 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 349106000211 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 349106000212 multifunctional aminopeptidase A; Provisional; Region: PRK00913 349106000213 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 349106000214 interface (dimer of trimers) [polypeptide binding]; other site 349106000215 Substrate-binding/catalytic site; other site 349106000216 Zn-binding sites [ion binding]; other site 349106000217 Predicted permeases [General function prediction only]; Region: COG0795 349106000218 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 349106000219 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 349106000220 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 349106000221 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 349106000222 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 349106000223 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349106000224 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 349106000225 S-adenosylmethionine binding site [chemical binding]; other site 349106000226 phosphoglycolate phosphatase; Provisional; Region: PRK13222 349106000227 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 349106000228 active site 349106000229 motif I; other site 349106000230 motif II; other site 349106000231 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 349106000232 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 349106000233 putative active site pocket [active] 349106000234 4-fold oligomerization interface [polypeptide binding]; other site 349106000235 metal binding residues [ion binding]; metal-binding site 349106000236 3-fold/trimer interface [polypeptide binding]; other site 349106000237 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 349106000238 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 349106000239 putative active site [active] 349106000240 oxyanion strand; other site 349106000241 catalytic triad [active] 349106000242 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 349106000243 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 349106000244 aconitate hydratase; Validated; Region: PRK09277 349106000245 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 349106000246 substrate binding site [chemical binding]; other site 349106000247 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 349106000248 ligand binding site [chemical binding]; other site 349106000249 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 349106000250 substrate binding site [chemical binding]; other site 349106000251 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 349106000252 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 349106000253 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 349106000254 active site 349106000255 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 349106000256 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 349106000257 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106000258 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 349106000259 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 349106000260 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349106000261 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349106000262 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 349106000263 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 349106000264 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 349106000265 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 349106000266 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 349106000267 FtsX-like permease family; Region: FtsX; pfam02687 349106000268 C factor cell-cell signaling protein; Provisional; Region: PRK09009 349106000269 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 349106000270 NADP binding site [chemical binding]; other site 349106000271 homodimer interface [polypeptide binding]; other site 349106000272 active site 349106000273 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349106000274 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106000275 putative metal binding site [ion binding]; other site 349106000276 hypothetical protein; Provisional; Region: PRK14013 349106000277 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349106000278 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106000279 putative metal binding site [ion binding]; other site 349106000280 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 349106000281 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349106000282 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106000283 putative metal binding site [ion binding]; other site 349106000284 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106000285 putative metal binding site [ion binding]; other site 349106000286 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349106000287 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 349106000288 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106000289 putative metal binding site [ion binding]; other site 349106000290 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 349106000291 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106000292 active site 349106000293 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 349106000294 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349106000295 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 349106000296 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 349106000297 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349106000298 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349106000299 Walker A/P-loop; other site 349106000300 ATP binding site [chemical binding]; other site 349106000301 Q-loop/lid; other site 349106000302 ABC transporter signature motif; other site 349106000303 Walker B; other site 349106000304 D-loop; other site 349106000305 H-loop/switch region; other site 349106000306 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 349106000307 active site 349106000308 catalytic triad [active] 349106000309 oxyanion hole [active] 349106000310 switch loop; other site 349106000311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349106000312 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349106000313 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 349106000314 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 349106000315 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000316 homodimer interface [polypeptide binding]; other site 349106000317 catalytic residue [active] 349106000318 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 349106000319 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 349106000320 putative substrate translocation pore; other site 349106000321 Protein of unknown function (DUF539); Region: DUF539; cl01129 349106000322 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 349106000323 ApbE family; Region: ApbE; pfam02424 349106000324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000325 short chain dehydrogenase; Provisional; Region: PRK06181 349106000326 NAD(P) binding site [chemical binding]; other site 349106000327 active site 349106000328 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 349106000329 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 349106000330 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 349106000331 catalytic loop [active] 349106000332 iron binding site [ion binding]; other site 349106000333 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 349106000334 FAD binding pocket [chemical binding]; other site 349106000335 FAD binding motif [chemical binding]; other site 349106000336 phosphate binding motif [ion binding]; other site 349106000337 beta-alpha-beta structure motif; other site 349106000338 NAD binding pocket [chemical binding]; other site 349106000339 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 349106000340 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 349106000341 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 349106000342 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 349106000343 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 349106000344 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 349106000345 lipoyl-biotinyl attachment site [posttranslational modification]; other site 349106000346 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 349106000347 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 349106000348 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 349106000349 catalytic residues [active] 349106000350 BON domain; Region: BON; pfam04972 349106000351 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106000352 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349106000353 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 349106000354 phosphate binding site [ion binding]; other site 349106000355 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349106000356 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 349106000357 putative NAD(P) binding site [chemical binding]; other site 349106000358 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 349106000359 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 349106000360 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 349106000361 catalytic site [active] 349106000362 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349106000363 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349106000364 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 349106000365 Walker A/P-loop; other site 349106000366 ATP binding site [chemical binding]; other site 349106000367 Q-loop/lid; other site 349106000368 ABC transporter signature motif; other site 349106000369 Walker B; other site 349106000370 D-loop; other site 349106000371 H-loop/switch region; other site 349106000372 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 349106000373 glycerate dehydrogenase; Provisional; Region: PRK06487 349106000374 putative ligand binding site [chemical binding]; other site 349106000375 putative NAD binding site [chemical binding]; other site 349106000376 catalytic site [active] 349106000377 ATP-dependent helicase HepA; Validated; Region: PRK04914 349106000378 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 349106000379 ATP binding site [chemical binding]; other site 349106000380 putative Mg++ binding site [ion binding]; other site 349106000381 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 349106000382 nucleotide binding region [chemical binding]; other site 349106000383 ATP-binding site [chemical binding]; other site 349106000384 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 349106000385 putative deacylase active site [active] 349106000386 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 349106000387 putative substrate binding pocket [chemical binding]; other site 349106000388 trimer interface [polypeptide binding]; other site 349106000389 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106000390 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106000391 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106000392 active site 349106000393 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106000394 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000395 Probable transposase; Region: OrfB_IS605; pfam01385 349106000396 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000397 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 349106000398 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 349106000399 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 349106000400 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 349106000401 shikimate binding site; other site 349106000402 NAD(P) binding site [chemical binding]; other site 349106000403 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349106000404 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 349106000405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000406 catalytic residue [active] 349106000407 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 349106000408 Dam-replacing family; Region: DRP; pfam06044 349106000409 YceG-like family; Region: YceG; pfam02618 349106000410 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 349106000411 dimerization interface [polypeptide binding]; other site 349106000412 thymidylate kinase; Validated; Region: tmk; PRK00698 349106000413 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 349106000414 TMP-binding site; other site 349106000415 ATP-binding site [chemical binding]; other site 349106000416 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 349106000417 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349106000418 TrkA-N domain; Region: TrkA_N; pfam02254 349106000419 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349106000420 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349106000421 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 349106000422 protein binding site [polypeptide binding]; other site 349106000423 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 349106000424 protein binding site [polypeptide binding]; other site 349106000425 Pirin-related protein [General function prediction only]; Region: COG1741 349106000426 Pirin; Region: Pirin; pfam02678 349106000427 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 349106000428 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 349106000429 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 349106000430 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349106000431 HIGH motif; other site 349106000432 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349106000433 active site 349106000434 KMSKS motif; other site 349106000435 MraW methylase family; Region: Methyltransf_5; cl17771 349106000436 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 349106000437 Cell division protein FtsL; Region: FtsL; pfam04999 349106000438 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 349106000439 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349106000440 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349106000441 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 349106000442 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106000443 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106000444 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 349106000445 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349106000446 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106000447 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106000448 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 349106000449 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 349106000450 Mg++ binding site [ion binding]; other site 349106000451 putative catalytic motif [active] 349106000452 putative substrate binding site [chemical binding]; other site 349106000453 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 349106000454 Methyltransferase domain; Region: Methyltransf_11; pfam08241 349106000455 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 349106000456 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 349106000457 active site 349106000458 Int/Topo IB signature motif; other site 349106000459 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 349106000460 CPxP motif; other site 349106000461 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000462 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106000463 Probable transposase; Region: OrfB_IS605; pfam01385 349106000464 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000465 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 349106000466 hypothetical protein; Validated; Region: PRK00228 349106000467 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 349106000468 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 349106000469 Walker A/P-loop; other site 349106000470 ATP binding site [chemical binding]; other site 349106000471 Q-loop/lid; other site 349106000472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106000473 ABC transporter signature motif; other site 349106000474 Walker B; other site 349106000475 D-loop; other site 349106000476 H-loop/switch region; other site 349106000477 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 349106000478 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 349106000479 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 349106000480 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 349106000481 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 349106000482 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 349106000483 CoA-binding site [chemical binding]; other site 349106000484 ATP-binding [chemical binding]; other site 349106000485 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 349106000486 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 349106000487 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 349106000488 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 349106000489 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 349106000490 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 349106000491 Type II/IV secretion system protein; Region: T2SE; pfam00437 349106000492 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 349106000493 Walker A motif; other site 349106000494 ATP binding site [chemical binding]; other site 349106000495 Walker B motif; other site 349106000496 triosephosphate isomerase; Provisional; Region: PRK14565 349106000497 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 349106000498 substrate binding site [chemical binding]; other site 349106000499 dimer interface [polypeptide binding]; other site 349106000500 catalytic triad [active] 349106000501 Preprotein translocase SecG subunit; Region: SecG; pfam03840 349106000502 ribosome maturation protein RimP; Reviewed; Region: PRK00092 349106000503 Sm and related proteins; Region: Sm_like; cl00259 349106000504 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 349106000505 putative oligomer interface [polypeptide binding]; other site 349106000506 putative RNA binding site [nucleotide binding]; other site 349106000507 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 349106000508 NusA N-terminal domain; Region: NusA_N; pfam08529 349106000509 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 349106000510 RNA binding site [nucleotide binding]; other site 349106000511 homodimer interface [polypeptide binding]; other site 349106000512 NusA-like KH domain; Region: KH_5; pfam13184 349106000513 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 349106000514 G-X-X-G motif; other site 349106000515 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 349106000516 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 349106000517 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 349106000518 translation initiation factor IF-2; Region: IF-2; TIGR00487 349106000519 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 349106000520 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 349106000521 G1 box; other site 349106000522 putative GEF interaction site [polypeptide binding]; other site 349106000523 GTP/Mg2+ binding site [chemical binding]; other site 349106000524 Switch I region; other site 349106000525 G2 box; other site 349106000526 G3 box; other site 349106000527 Switch II region; other site 349106000528 G4 box; other site 349106000529 G5 box; other site 349106000530 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 349106000531 Translation-initiation factor 2; Region: IF-2; pfam11987 349106000532 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 349106000533 ribosome-binding factor A; Provisional; Region: PRK13816 349106000534 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 349106000535 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 349106000536 RNA binding site [nucleotide binding]; other site 349106000537 active site 349106000538 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 349106000539 intracellular protease, PfpI family; Region: PfpI; TIGR01382 349106000540 proposed catalytic triad [active] 349106000541 conserved cys residue [active] 349106000542 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 349106000543 16S/18S rRNA binding site [nucleotide binding]; other site 349106000544 S13e-L30e interaction site [polypeptide binding]; other site 349106000545 25S rRNA binding site [nucleotide binding]; other site 349106000546 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 349106000547 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 349106000548 RNase E interface [polypeptide binding]; other site 349106000549 trimer interface [polypeptide binding]; other site 349106000550 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 349106000551 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 349106000552 RNase E interface [polypeptide binding]; other site 349106000553 trimer interface [polypeptide binding]; other site 349106000554 active site 349106000555 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 349106000556 putative nucleic acid binding region [nucleotide binding]; other site 349106000557 G-X-X-G motif; other site 349106000558 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 349106000559 RNA binding site [nucleotide binding]; other site 349106000560 domain interface; other site 349106000561 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 349106000562 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 349106000563 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 349106000564 putative acyl-acceptor binding pocket; other site 349106000565 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 349106000566 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 349106000567 active site 349106000568 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 349106000569 catalytic triad [active] 349106000570 dimer interface [polypeptide binding]; other site 349106000571 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349106000572 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 349106000573 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106000574 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 349106000575 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349106000576 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 349106000577 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349106000578 minor groove reading motif; other site 349106000579 helix-hairpin-helix signature motif; other site 349106000580 substrate binding pocket [chemical binding]; other site 349106000581 active site 349106000582 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 349106000583 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 349106000584 DNA binding and oxoG recognition site [nucleotide binding] 349106000585 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 349106000586 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 349106000587 GTP/Mg2+ binding site [chemical binding]; other site 349106000588 G4 box; other site 349106000589 G5 box; other site 349106000590 G1 box; other site 349106000591 Switch I region; other site 349106000592 G2 box; other site 349106000593 G3 box; other site 349106000594 Switch II region; other site 349106000595 Dienelactone hydrolase family; Region: DLH; pfam01738 349106000596 hypothetical protein; Provisional; Region: PRK05170 349106000597 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 349106000598 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 349106000599 Nitrogen regulatory protein P-II; Region: P-II; smart00938 349106000600 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 349106000601 Ligand Binding Site [chemical binding]; other site 349106000602 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 349106000603 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 349106000604 Sulfate transporter family; Region: Sulfate_transp; pfam00916 349106000605 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 349106000606 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 349106000607 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106000608 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106000609 cell division protein FtsW; Region: ftsW; TIGR02614 349106000610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000611 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106000612 Probable transposase; Region: OrfB_IS605; pfam01385 349106000613 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000614 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 349106000615 active site 349106000616 HIGH motif; other site 349106000617 nucleotide binding site [chemical binding]; other site 349106000618 active site 349106000619 KMSKS motif; other site 349106000620 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 349106000621 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349106000622 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 349106000623 hexamer interface [polypeptide binding]; other site 349106000624 active site 349106000625 metal binding site [ion binding]; metal-binding site 349106000626 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 349106000627 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349106000628 ABC-ATPase subunit interface; other site 349106000629 dimer interface [polypeptide binding]; other site 349106000630 putative PBP binding regions; other site 349106000631 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 349106000632 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106000633 Walker A/P-loop; other site 349106000634 ATP binding site [chemical binding]; other site 349106000635 Q-loop/lid; other site 349106000636 ABC transporter signature motif; other site 349106000637 Walker B; other site 349106000638 D-loop; other site 349106000639 H-loop/switch region; other site 349106000640 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349106000641 metal binding site 2 [ion binding]; metal-binding site 349106000642 putative DNA binding helix; other site 349106000643 metal binding site 1 [ion binding]; metal-binding site 349106000644 dimer interface [polypeptide binding]; other site 349106000645 structural Zn2+ binding site [ion binding]; other site 349106000646 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 349106000647 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 349106000648 intersubunit interface [polypeptide binding]; other site 349106000649 ATP synthase I chain; Region: ATP_synt_I; cl09170 349106000650 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 349106000651 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 349106000652 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 349106000653 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 349106000654 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 349106000655 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 349106000656 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 349106000657 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 349106000658 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 349106000659 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 349106000660 beta subunit interaction interface [polypeptide binding]; other site 349106000661 Walker A motif; other site 349106000662 ATP binding site [chemical binding]; other site 349106000663 Walker B motif; other site 349106000664 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349106000665 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 349106000666 core domain interface [polypeptide binding]; other site 349106000667 delta subunit interface [polypeptide binding]; other site 349106000668 epsilon subunit interface [polypeptide binding]; other site 349106000669 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 349106000670 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 349106000671 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 349106000672 alpha subunit interaction interface [polypeptide binding]; other site 349106000673 Walker A motif; other site 349106000674 ATP binding site [chemical binding]; other site 349106000675 Walker B motif; other site 349106000676 inhibitor binding site; inhibition site 349106000677 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349106000678 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 349106000679 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 349106000680 gamma subunit interface [polypeptide binding]; other site 349106000681 epsilon subunit interface [polypeptide binding]; other site 349106000682 LBP interface [polypeptide binding]; other site 349106000683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000684 Probable transposase; Region: OrfB_IS605; pfam01385 349106000685 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000686 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 349106000687 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 349106000688 active site 349106000689 phosphorylation site [posttranslational modification] 349106000690 intermolecular recognition site; other site 349106000691 dimerization interface [polypeptide binding]; other site 349106000692 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 349106000693 DNA binding site [nucleotide binding] 349106000694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000695 Probable transposase; Region: OrfB_IS605; pfam01385 349106000696 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000697 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349106000698 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 349106000699 dimerization interface [polypeptide binding]; other site 349106000700 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 349106000701 dimer interface [polypeptide binding]; other site 349106000702 phosphorylation site [posttranslational modification] 349106000703 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 349106000704 ATP binding site [chemical binding]; other site 349106000705 Mg2+ binding site [ion binding]; other site 349106000706 G-X-G motif; other site 349106000707 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 349106000708 dimerization interface [polypeptide binding]; other site 349106000709 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 349106000710 dimer interface [polypeptide binding]; other site 349106000711 phosphorylation site [posttranslational modification] 349106000712 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 349106000713 ATP binding site [chemical binding]; other site 349106000714 Mg2+ binding site [ion binding]; other site 349106000715 G-X-G motif; other site 349106000716 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 349106000717 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 349106000718 RimM N-terminal domain; Region: RimM; pfam01782 349106000719 PRC-barrel domain; Region: PRC; pfam05239 349106000720 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 349106000721 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 349106000722 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 349106000723 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 349106000724 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 349106000725 GIY-YIG motif/motif A; other site 349106000726 active site 349106000727 catalytic site [active] 349106000728 putative DNA binding site [nucleotide binding]; other site 349106000729 metal binding site [ion binding]; metal-binding site 349106000730 UvrB/uvrC motif; Region: UVR; pfam02151 349106000731 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 349106000732 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000733 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106000734 Probable transposase; Region: OrfB_IS605; pfam01385 349106000735 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000736 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 349106000737 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 349106000738 dimer interface [polypeptide binding]; other site 349106000739 active site 349106000740 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 349106000741 BolA-like protein; Region: BolA; pfam01722 349106000742 Peptidase family M48; Region: Peptidase_M48; pfam01435 349106000743 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 349106000744 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 349106000745 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 349106000746 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 349106000747 molybdopterin cofactor binding site [chemical binding]; other site 349106000748 substrate binding site [chemical binding]; other site 349106000749 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 349106000750 molybdopterin cofactor binding site; other site 349106000751 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 349106000752 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 349106000753 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 349106000754 dimer interface [polypeptide binding]; other site 349106000755 putative functional site; other site 349106000756 putative MPT binding site; other site 349106000757 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 349106000758 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 349106000759 FeS/SAM binding site; other site 349106000760 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 349106000761 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 349106000762 MPT binding site; other site 349106000763 trimer interface [polypeptide binding]; other site 349106000764 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 349106000765 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 349106000766 GTP binding site; other site 349106000767 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 349106000768 trimer interface [polypeptide binding]; other site 349106000769 dimer interface [polypeptide binding]; other site 349106000770 putative active site [active] 349106000771 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 349106000772 MoaE interaction surface [polypeptide binding]; other site 349106000773 MoeB interaction surface [polypeptide binding]; other site 349106000774 thiocarboxylated glycine; other site 349106000775 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 349106000776 MoaE homodimer interface [polypeptide binding]; other site 349106000777 MoaD interaction [polypeptide binding]; other site 349106000778 active site residues [active] 349106000779 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349106000780 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 349106000781 dimer interface [polypeptide binding]; other site 349106000782 conserved gate region; other site 349106000783 putative PBP binding loops; other site 349106000784 ABC-ATPase subunit interface; other site 349106000785 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349106000786 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 349106000787 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 349106000788 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 349106000789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000790 homodimer interface [polypeptide binding]; other site 349106000791 catalytic residue [active] 349106000792 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 349106000793 UDP-glucose 4-epimerase; Region: PLN02240 349106000794 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 349106000795 NAD binding site [chemical binding]; other site 349106000796 homodimer interface [polypeptide binding]; other site 349106000797 active site 349106000798 substrate binding site [chemical binding]; other site 349106000799 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 349106000800 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349106000801 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 349106000802 putative NAD(P) binding site [chemical binding]; other site 349106000803 active site 349106000804 putative substrate binding site [chemical binding]; other site 349106000805 Bacterial sugar transferase; Region: Bac_transf; pfam02397 349106000806 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106000807 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 349106000808 putative ADP-binding pocket [chemical binding]; other site 349106000809 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106000810 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 349106000811 putative ADP-binding pocket [chemical binding]; other site 349106000812 HTH-like domain; Region: HTH_21; pfam13276 349106000813 Integrase core domain; Region: rve; pfam00665 349106000814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106000815 Transposase; Region: HTH_Tnp_1; pfam01527 349106000816 Transposase; Region: HTH_Tnp_1; pfam01527 349106000817 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 349106000818 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 349106000819 active site 349106000820 dimer interface [polypeptide binding]; other site 349106000821 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 349106000822 Ligand Binding Site [chemical binding]; other site 349106000823 Molecular Tunnel; other site 349106000824 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106000825 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 349106000826 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 349106000827 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 349106000828 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 349106000829 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106000830 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 349106000831 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 349106000832 inhibitor-cofactor binding pocket; inhibition site 349106000833 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000834 catalytic residue [active] 349106000835 putative trimer interface [polypeptide binding]; other site 349106000836 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 349106000837 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 349106000838 putative CoA binding site [chemical binding]; other site 349106000839 putative trimer interface [polypeptide binding]; other site 349106000840 putative active site [active] 349106000841 putative substrate binding site [chemical binding]; other site 349106000842 putative CoA binding site [chemical binding]; other site 349106000843 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 349106000844 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 349106000845 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 349106000846 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 349106000847 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 349106000848 NAD binding site [chemical binding]; other site 349106000849 substrate binding site [chemical binding]; other site 349106000850 homodimer interface [polypeptide binding]; other site 349106000851 active site 349106000852 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 349106000853 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349106000854 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 349106000855 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 349106000856 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 349106000857 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 349106000858 NAD(P) binding site [chemical binding]; other site 349106000859 homodimer interface [polypeptide binding]; other site 349106000860 substrate binding site [chemical binding]; other site 349106000861 active site 349106000862 tyrosine kinase; Provisional; Region: PRK11519 349106000863 Chain length determinant protein; Region: Wzz; pfam02706 349106000864 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 349106000865 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 349106000866 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349106000867 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349106000868 active site 349106000869 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349106000870 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 349106000871 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 349106000872 Part of AAA domain; Region: AAA_19; pfam13245 349106000873 Family description; Region: UvrD_C_2; pfam13538 349106000874 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106000875 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 349106000876 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 349106000877 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 349106000878 dimerization interface [polypeptide binding]; other site 349106000879 recombination factor protein RarA; Reviewed; Region: PRK13342 349106000880 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 349106000881 Walker A motif; other site 349106000882 ATP binding site [chemical binding]; other site 349106000883 Walker B motif; other site 349106000884 arginine finger; other site 349106000885 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 349106000886 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 349106000887 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 349106000888 dimer interface [polypeptide binding]; other site 349106000889 active site 349106000890 citrylCoA binding site [chemical binding]; other site 349106000891 NADH binding [chemical binding]; other site 349106000892 cationic pore residues; other site 349106000893 oxalacetate/citrate binding site [chemical binding]; other site 349106000894 coenzyme A binding site [chemical binding]; other site 349106000895 catalytic triad [active] 349106000896 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 349106000897 Iron-sulfur protein interface; other site 349106000898 proximal quinone binding site [chemical binding]; other site 349106000899 SdhD (CybS) interface [polypeptide binding]; other site 349106000900 proximal heme binding site [chemical binding]; other site 349106000901 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 349106000902 SdhC subunit interface [polypeptide binding]; other site 349106000903 proximal heme binding site [chemical binding]; other site 349106000904 cardiolipin binding site; other site 349106000905 Iron-sulfur protein interface; other site 349106000906 proximal quinone binding site [chemical binding]; other site 349106000907 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 349106000908 L-aspartate oxidase; Provisional; Region: PRK06175 349106000909 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349106000910 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 349106000911 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 349106000912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106000913 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106000914 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 349106000915 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 349106000916 TPP-binding site [chemical binding]; other site 349106000917 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 349106000918 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 349106000919 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 349106000920 E3 interaction surface; other site 349106000921 lipoyl attachment site [posttranslational modification]; other site 349106000922 e3 binding domain; Region: E3_binding; pfam02817 349106000923 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 349106000924 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 349106000925 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106000926 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106000927 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 349106000928 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 349106000929 CoA-ligase; Region: Ligase_CoA; pfam00549 349106000930 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 349106000931 CoA binding domain; Region: CoA_binding; smart00881 349106000932 CoA-ligase; Region: Ligase_CoA; pfam00549 349106000933 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349106000934 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 349106000935 active site 349106000936 tetramer interface; other site 349106000937 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 349106000938 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 349106000939 active site 349106000940 dimer interface [polypeptide binding]; other site 349106000941 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 349106000942 dimer interface [polypeptide binding]; other site 349106000943 active site 349106000944 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 349106000945 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349106000946 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 349106000947 phosphomannomutase CpsG; Provisional; Region: PRK15414 349106000948 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 349106000949 active site 349106000950 substrate binding site [chemical binding]; other site 349106000951 metal binding site [ion binding]; metal-binding site 349106000952 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 349106000953 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 349106000954 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349106000955 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 349106000956 MazG family protein; Region: mazG; TIGR00444 349106000957 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 349106000958 homodimer interface [polypeptide binding]; other site 349106000959 metal binding site [ion binding]; metal-binding site 349106000960 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 349106000961 homodimer interface [polypeptide binding]; other site 349106000962 active site 349106000963 putative chemical substrate binding site [chemical binding]; other site 349106000964 metal binding site [ion binding]; metal-binding site 349106000965 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 349106000966 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 349106000967 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 349106000968 Na binding site [ion binding]; other site 349106000969 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 349106000970 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 349106000971 amino acid carrier protein; Region: agcS; TIGR00835 349106000972 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 349106000973 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349106000974 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 349106000975 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 349106000976 glutamate racemase; Provisional; Region: PRK00865 349106000977 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349106000978 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 349106000979 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106000980 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 349106000981 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349106000982 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 349106000983 active site 349106000984 phosphate binding residues; other site 349106000985 catalytic residues [active] 349106000986 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 349106000987 methionine sulfoxide reductase A; Provisional; Region: PRK14054 349106000988 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349106000989 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 349106000990 S-adenosylmethionine binding site [chemical binding]; other site 349106000991 Methyltransferase domain; Region: Methyltransf_23; pfam13489 349106000992 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 349106000993 S-adenosylmethionine binding site [chemical binding]; other site 349106000994 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 349106000995 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 349106000996 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 349106000997 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106000998 active site 349106000999 HIGH motif; other site 349106001000 nucleotide binding site [chemical binding]; other site 349106001001 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 349106001002 KMSK motif region; other site 349106001003 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349106001004 tRNA binding surface [nucleotide binding]; other site 349106001005 anticodon binding site; other site 349106001006 Sporulation related domain; Region: SPOR; pfam05036 349106001007 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 349106001008 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106001009 putative DNA binding site [nucleotide binding]; other site 349106001010 putative Zn2+ binding site [ion binding]; other site 349106001011 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106001012 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349106001013 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 349106001014 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 349106001015 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 349106001016 substrate binding site [chemical binding]; other site 349106001017 oxyanion hole (OAH) forming residues; other site 349106001018 trimer interface [polypeptide binding]; other site 349106001019 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 349106001020 enoyl-CoA hydratase; Provisional; Region: PRK09076 349106001021 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 349106001022 substrate binding site [chemical binding]; other site 349106001023 oxyanion hole (OAH) forming residues; other site 349106001024 trimer interface [polypeptide binding]; other site 349106001025 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349106001026 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106001027 active site 349106001028 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 349106001029 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 349106001030 tetrameric interface [polypeptide binding]; other site 349106001031 NAD binding site [chemical binding]; other site 349106001032 catalytic residues [active] 349106001033 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 349106001034 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349106001035 acyl-activating enzyme (AAE) consensus motif; other site 349106001036 AMP binding site [chemical binding]; other site 349106001037 active site 349106001038 CoA binding site [chemical binding]; other site 349106001039 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349106001040 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 349106001041 putative substrate translocation pore; other site 349106001042 short chain dehydrogenase; Validated; Region: PRK06182 349106001043 classical (c) SDRs; Region: SDR_c; cd05233 349106001044 NAD(P) binding site [chemical binding]; other site 349106001045 active site 349106001046 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 349106001047 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 349106001048 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 349106001049 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 349106001050 Walker A motif; other site 349106001051 ATP binding site [chemical binding]; other site 349106001052 Walker B motif; other site 349106001053 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 349106001054 Clp protease; Region: CLP_protease; pfam00574 349106001055 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 349106001056 oligomer interface [polypeptide binding]; other site 349106001057 active site residues [active] 349106001058 trigger factor; Provisional; Region: tig; PRK01490 349106001059 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 349106001060 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 349106001061 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 349106001062 active site 349106001063 dimerization interface [polypeptide binding]; other site 349106001064 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 349106001065 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 349106001066 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 349106001067 Protein of unknown function DUF72; Region: DUF72; pfam01904 349106001068 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 349106001069 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 349106001070 tRNA; other site 349106001071 putative tRNA binding site [nucleotide binding]; other site 349106001072 putative NADP binding site [chemical binding]; other site 349106001073 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 349106001074 Rhomboid family; Region: Rhomboid; pfam01694 349106001075 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 349106001076 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106001077 ligand binding site [chemical binding]; other site 349106001078 beta-hexosaminidase; Provisional; Region: PRK05337 349106001079 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 349106001080 carboxy-terminal protease; Provisional; Region: PRK11186 349106001081 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 349106001082 protein binding site [polypeptide binding]; other site 349106001083 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 349106001084 Catalytic dyad [active] 349106001085 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 349106001086 CsbD-like; Region: CsbD; cl17424 349106001087 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349106001088 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349106001089 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349106001090 HAMP domain; Region: HAMP; pfam00672 349106001091 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 349106001092 dimer interface [polypeptide binding]; other site 349106001093 phosphorylation site [posttranslational modification] 349106001094 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 349106001095 ATP binding site [chemical binding]; other site 349106001096 Mg2+ binding site [ion binding]; other site 349106001097 G-X-G motif; other site 349106001098 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349106001099 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 349106001100 active site 349106001101 phosphorylation site [posttranslational modification] 349106001102 intermolecular recognition site; other site 349106001103 dimerization interface [polypeptide binding]; other site 349106001104 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 349106001105 DNA binding site [nucleotide binding] 349106001106 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 349106001107 dimer interface [polypeptide binding]; other site 349106001108 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 349106001109 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 349106001110 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 349106001111 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 349106001112 PhnA protein; Region: PhnA; pfam03831 349106001113 EDD domain protein, DegV family; Region: DegV; TIGR00762 349106001114 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 349106001115 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 349106001116 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 349106001117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106001118 Walker A/P-loop; other site 349106001119 ATP binding site [chemical binding]; other site 349106001120 Q-loop/lid; other site 349106001121 ABC transporter signature motif; other site 349106001122 Walker B; other site 349106001123 D-loop; other site 349106001124 H-loop/switch region; other site 349106001125 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 349106001126 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349106001127 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106001128 Walker A/P-loop; other site 349106001129 ATP binding site [chemical binding]; other site 349106001130 Q-loop/lid; other site 349106001131 ABC transporter signature motif; other site 349106001132 Walker B; other site 349106001133 D-loop; other site 349106001134 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 349106001135 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 349106001136 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 349106001137 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 349106001138 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 349106001139 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 349106001140 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 349106001141 inhibitor-cofactor binding pocket; inhibition site 349106001142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001143 catalytic residue [active] 349106001144 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 349106001145 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 349106001146 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 349106001147 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 349106001148 DNA-binding site [nucleotide binding]; DNA binding site 349106001149 RNA-binding motif; other site 349106001150 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 349106001151 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 349106001152 putative molybdopterin cofactor binding site [chemical binding]; other site 349106001153 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 349106001154 putative molybdopterin cofactor binding site; other site 349106001155 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 349106001156 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 349106001157 Ligand Binding Site [chemical binding]; other site 349106001158 TilS substrate binding domain; Region: TilS; pfam09179 349106001159 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 349106001160 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 349106001161 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 349106001162 YGGT family; Region: YGGT; pfam02325 349106001163 RDD family; Region: RDD; pfam06271 349106001164 Hemerythrin-like domain; Region: Hr-like; cd12108 349106001165 Fe binding site [ion binding]; other site 349106001166 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349106001167 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 349106001168 FMN binding site [chemical binding]; other site 349106001169 active site 349106001170 substrate binding site [chemical binding]; other site 349106001171 catalytic residue [active] 349106001172 pantothenate kinase; Reviewed; Region: PRK13322 349106001173 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 349106001174 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 349106001175 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 349106001176 active site 349106001177 (T/H)XGH motif; other site 349106001178 phosphate acetyltransferase; Reviewed; Region: PRK05632 349106001179 DRTGG domain; Region: DRTGG; pfam07085 349106001180 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 349106001181 propionate/acetate kinase; Provisional; Region: PRK12379 349106001182 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 349106001183 diaminopimelate decarboxylase; Region: lysA; TIGR01048 349106001184 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 349106001185 active site 349106001186 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106001187 substrate binding site [chemical binding]; other site 349106001188 catalytic residues [active] 349106001189 dimer interface [polypeptide binding]; other site 349106001190 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 349106001191 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349106001192 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349106001193 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 349106001194 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 349106001195 active site 349106001196 DNA binding site [nucleotide binding] 349106001197 Int/Topo IB signature motif; other site 349106001198 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 349106001199 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349106001200 active site 349106001201 catalytic triad [active] 349106001202 dimer interface [polypeptide binding]; other site 349106001203 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349106001204 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 349106001205 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349106001206 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349106001207 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 349106001208 30S subunit binding site; other site 349106001209 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 349106001210 thiS-thiF/thiG interaction site; other site 349106001211 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 349106001212 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 349106001213 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349106001214 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349106001215 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 349106001216 DNA binding residues [nucleotide binding] 349106001217 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 349106001218 CPxP motif; other site 349106001219 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 349106001220 Peptidase family M48; Region: Peptidase_M48; pfam01435 349106001221 Yqey-like protein; Region: YqeY; pfam09424 349106001222 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 349106001223 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 349106001224 UGMP family protein; Validated; Region: PRK09604 349106001225 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 349106001226 chromosome condensation membrane protein; Provisional; Region: PRK14196 349106001227 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106001228 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 349106001229 putative dimerization interface [polypeptide binding]; other site 349106001230 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 349106001231 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 349106001232 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106001233 Probable transposase; Region: OrfB_IS605; pfam01385 349106001234 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106001235 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 349106001236 hypothetical protein; Provisional; Region: PRK10621 349106001237 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349106001238 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 349106001239 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 349106001240 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 349106001241 GTP-binding protein LepA; Provisional; Region: PRK05433 349106001242 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 349106001243 G1 box; other site 349106001244 putative GEF interaction site [polypeptide binding]; other site 349106001245 GTP/Mg2+ binding site [chemical binding]; other site 349106001246 Switch I region; other site 349106001247 G2 box; other site 349106001248 G3 box; other site 349106001249 Switch II region; other site 349106001250 G4 box; other site 349106001251 G5 box; other site 349106001252 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 349106001253 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 349106001254 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 349106001255 signal peptidase I; Provisional; Region: PRK10861 349106001256 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 349106001257 Catalytic site [active] 349106001258 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 349106001259 ribonuclease III; Reviewed; Region: rnc; PRK00102 349106001260 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 349106001261 dimerization interface [polypeptide binding]; other site 349106001262 active site 349106001263 metal binding site [ion binding]; metal-binding site 349106001264 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 349106001265 dsRNA binding site [nucleotide binding]; other site 349106001266 GTPase Era; Reviewed; Region: era; PRK00089 349106001267 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 349106001268 G1 box; other site 349106001269 GTP/Mg2+ binding site [chemical binding]; other site 349106001270 Switch I region; other site 349106001271 G2 box; other site 349106001272 Switch II region; other site 349106001273 G3 box; other site 349106001274 G4 box; other site 349106001275 G5 box; other site 349106001276 KH domain; Region: KH_2; pfam07650 349106001277 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 349106001278 Recombination protein O N terminal; Region: RecO_N; pfam11967 349106001279 Recombination protein O C terminal; Region: RecO_C; pfam02565 349106001280 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 349106001281 active site 349106001282 hydrophilic channel; other site 349106001283 dimerization interface [polypeptide binding]; other site 349106001284 catalytic residues [active] 349106001285 active site lid [active] 349106001286 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 349106001287 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 349106001288 Type II transport protein GspH; Region: GspH; pfam12019 349106001289 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 349106001290 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349106001291 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106001292 ligand binding site [chemical binding]; other site 349106001293 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 349106001294 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 349106001295 G1 box; other site 349106001296 putative GEF interaction site [polypeptide binding]; other site 349106001297 GTP/Mg2+ binding site [chemical binding]; other site 349106001298 Switch I region; other site 349106001299 G2 box; other site 349106001300 G3 box; other site 349106001301 Switch II region; other site 349106001302 G4 box; other site 349106001303 G5 box; other site 349106001304 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 349106001305 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 349106001306 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 349106001307 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 349106001308 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 349106001309 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 349106001310 DNA binding site [nucleotide binding] 349106001311 catalytic residue [active] 349106001312 H2TH interface [polypeptide binding]; other site 349106001313 putative catalytic residues [active] 349106001314 turnover-facilitating residue; other site 349106001315 intercalation triad [nucleotide binding]; other site 349106001316 8OG recognition residue [nucleotide binding]; other site 349106001317 putative reading head residues; other site 349106001318 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 349106001319 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 349106001320 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349106001321 HD domain; Region: HD_4; pfam13328 349106001322 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349106001323 synthetase active site [active] 349106001324 NTP binding site [chemical binding]; other site 349106001325 metal binding site [ion binding]; metal-binding site 349106001326 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 349106001327 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 349106001328 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 349106001329 TRAM domain; Region: TRAM; cl01282 349106001330 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 349106001331 S-adenosylmethionine binding site [chemical binding]; other site 349106001332 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 349106001333 active site 349106001334 catalytic site [active] 349106001335 substrate binding site [chemical binding]; other site 349106001336 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 349106001337 cysteine synthase B; Region: cysM; TIGR01138 349106001338 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 349106001339 dimer interface [polypeptide binding]; other site 349106001340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001341 catalytic residue [active] 349106001342 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 349106001343 dimer interface [polypeptide binding]; other site 349106001344 phosphorylation site [posttranslational modification] 349106001345 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 349106001346 ATP binding site [chemical binding]; other site 349106001347 Mg2+ binding site [ion binding]; other site 349106001348 G-X-G motif; other site 349106001349 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349106001350 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 349106001351 active site 349106001352 phosphorylation site [posttranslational modification] 349106001353 intermolecular recognition site; other site 349106001354 dimerization interface [polypeptide binding]; other site 349106001355 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 349106001356 putative binding surface; other site 349106001357 active site 349106001358 enoyl-CoA hydratase; Provisional; Region: PRK07509 349106001359 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 349106001360 substrate binding site [chemical binding]; other site 349106001361 oxyanion hole (OAH) forming residues; other site 349106001362 trimer interface [polypeptide binding]; other site 349106001363 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 349106001364 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 349106001365 putative substrate translocation pore; other site 349106001366 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 349106001367 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349106001368 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 349106001369 P-loop; other site 349106001370 Magnesium ion binding site [ion binding]; other site 349106001371 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 349106001372 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 349106001373 active site 349106001374 interdomain interaction site; other site 349106001375 putative metal-binding site [ion binding]; other site 349106001376 nucleotide binding site [chemical binding]; other site 349106001377 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 349106001378 domain I; other site 349106001379 DNA binding groove [nucleotide binding] 349106001380 phosphate binding site [ion binding]; other site 349106001381 domain II; other site 349106001382 domain III; other site 349106001383 nucleotide binding site [chemical binding]; other site 349106001384 catalytic site [active] 349106001385 domain IV; other site 349106001386 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349106001387 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349106001388 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 349106001389 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 349106001390 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 349106001391 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 349106001392 active site residue [active] 349106001393 Transglycosylase; Region: Transgly; pfam00912 349106001394 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 349106001395 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 349106001396 Competence protein A; Region: Competence_A; pfam11104 349106001397 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349106001398 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 349106001399 Pilus assembly protein, PilO; Region: PilO; cl01234 349106001400 Pilus assembly protein, PilP; Region: PilP; pfam04351 349106001401 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 349106001402 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 349106001403 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 349106001404 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 349106001405 shikimate kinase; Reviewed; Region: aroK; PRK00131 349106001406 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 349106001407 ADP binding site [chemical binding]; other site 349106001408 magnesium binding site [ion binding]; other site 349106001409 putative shikimate binding site; other site 349106001410 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 349106001411 active site 349106001412 dimer interface [polypeptide binding]; other site 349106001413 metal binding site [ion binding]; metal-binding site 349106001414 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 349106001415 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 349106001416 active site 349106001417 dimer interface [polypeptide binding]; other site 349106001418 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 349106001419 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 349106001420 active site 349106001421 FMN binding site [chemical binding]; other site 349106001422 substrate binding site [chemical binding]; other site 349106001423 3Fe-4S cluster binding site [ion binding]; other site 349106001424 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 349106001425 domain interface; other site 349106001426 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 349106001427 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349106001428 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106001429 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 349106001430 active site clefts [active] 349106001431 zinc binding site [ion binding]; other site 349106001432 dimer interface [polypeptide binding]; other site 349106001433 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349106001434 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 349106001435 dimer interface [polypeptide binding]; other site 349106001436 active site 349106001437 metal binding site [ion binding]; metal-binding site 349106001438 glutathione binding site [chemical binding]; other site 349106001439 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349106001440 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106001441 Cytochrome C' Region: Cytochrom_C_2; pfam01322 349106001442 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 349106001443 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 349106001444 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 349106001445 dimerization interface [polypeptide binding]; other site 349106001446 active site 349106001447 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 349106001448 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 349106001449 TPP-binding site; other site 349106001450 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 349106001451 PYR/PP interface [polypeptide binding]; other site 349106001452 dimer interface [polypeptide binding]; other site 349106001453 TPP binding site [chemical binding]; other site 349106001454 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349106001455 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 349106001456 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 349106001457 active site 349106001458 dimerization interface [polypeptide binding]; other site 349106001459 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 349106001460 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 349106001461 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 349106001462 putative active site [active] 349106001463 putative substrate binding site [chemical binding]; other site 349106001464 putative cosubstrate binding site; other site 349106001465 catalytic site [active] 349106001466 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106001467 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 349106001468 Tetratricopeptide repeat; Region: TPR_12; pfam13424 349106001469 binding surface 349106001470 TPR motif; other site 349106001471 Protein of unknown function (DUF560); Region: DUF560; pfam04575 349106001472 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 349106001473 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 349106001474 GatB domain; Region: GatB_Yqey; smart00845 349106001475 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349106001476 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 349106001477 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 349106001478 rod shape-determining protein MreB; Provisional; Region: PRK13927 349106001479 MreB and similar proteins; Region: MreB_like; cd10225 349106001480 nucleotide binding site [chemical binding]; other site 349106001481 Mg binding site [ion binding]; other site 349106001482 putative protofilament interaction site [polypeptide binding]; other site 349106001483 RodZ interaction site [polypeptide binding]; other site 349106001484 rod shape-determining protein MreC; Provisional; Region: PRK13922 349106001485 rod shape-determining protein MreC; Region: MreC; pfam04085 349106001486 rod shape-determining protein MreD; Region: MreD; cl01087 349106001487 Maf-like protein; Region: Maf; pfam02545 349106001488 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 349106001489 active site 349106001490 dimer interface [polypeptide binding]; other site 349106001491 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 349106001492 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 349106001493 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 349106001494 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 349106001495 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 349106001496 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 349106001497 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 349106001498 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 349106001499 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 349106001500 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 349106001501 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 349106001502 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 349106001503 putative translocon binding site; other site 349106001504 protein-rRNA interface [nucleotide binding]; other site 349106001505 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 349106001506 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 349106001507 G-X-X-G motif; other site 349106001508 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 349106001509 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 349106001510 23S rRNA interface [nucleotide binding]; other site 349106001511 5S rRNA interface [nucleotide binding]; other site 349106001512 putative antibiotic binding site [chemical binding]; other site 349106001513 L25 interface [polypeptide binding]; other site 349106001514 L27 interface [polypeptide binding]; other site 349106001515 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 349106001516 23S rRNA interface [nucleotide binding]; other site 349106001517 putative translocon interaction site; other site 349106001518 signal recognition particle (SRP54) interaction site; other site 349106001519 L23 interface [polypeptide binding]; other site 349106001520 trigger factor interaction site; other site 349106001521 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 349106001522 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 349106001523 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 349106001524 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 349106001525 RNA binding site [nucleotide binding]; other site 349106001526 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 349106001527 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 349106001528 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 349106001529 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 349106001530 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 349106001531 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 349106001532 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349106001533 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349106001534 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 349106001535 5S rRNA interface [nucleotide binding]; other site 349106001536 23S rRNA interface [nucleotide binding]; other site 349106001537 L5 interface [polypeptide binding]; other site 349106001538 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 349106001539 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 349106001540 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 349106001541 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 349106001542 23S rRNA binding site [nucleotide binding]; other site 349106001543 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 349106001544 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 349106001545 SecY translocase; Region: SecY; pfam00344 349106001546 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 349106001547 30S ribosomal protein S13; Region: bact_S13; TIGR03631 349106001548 30S ribosomal protein S11; Validated; Region: PRK05309 349106001549 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 349106001550 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 349106001551 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 349106001552 RNA binding surface [nucleotide binding]; other site 349106001553 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 349106001554 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 349106001555 alphaNTD homodimer interface [polypeptide binding]; other site 349106001556 alphaNTD - beta interaction site [polypeptide binding]; other site 349106001557 alphaNTD - beta' interaction site [polypeptide binding]; other site 349106001558 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 349106001559 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 349106001560 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 349106001561 Protein of unknown function, DUF462; Region: DUF462; pfam04315 349106001562 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 349106001563 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 349106001564 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349106001565 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 349106001566 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 349106001567 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 349106001568 NAD(P) binding site [chemical binding]; other site 349106001569 homotetramer interface [polypeptide binding]; other site 349106001570 homodimer interface [polypeptide binding]; other site 349106001571 active site 349106001572 acyl carrier protein; Provisional; Region: acpP; PRK00982 349106001573 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 349106001574 BON domain; Region: BON; pfam04972 349106001575 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106001576 epoxyqueuosine reductase; Region: TIGR00276 349106001577 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 349106001578 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 349106001579 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 349106001580 putative substrate binding site [chemical binding]; other site 349106001581 putative ATP binding site [chemical binding]; other site 349106001582 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 349106001583 nudix motif; other site 349106001584 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 349106001585 putative active site [active] 349106001586 putative CoA binding site [chemical binding]; other site 349106001587 nudix motif; other site 349106001588 metal binding site [ion binding]; metal-binding site 349106001589 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 349106001590 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 349106001591 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349106001592 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 349106001593 AAA domain; Region: AAA_23; pfam13476 349106001594 Walker A/P-loop; other site 349106001595 ATP binding site [chemical binding]; other site 349106001596 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 349106001597 Q-loop/lid; other site 349106001598 ABC transporter signature motif; other site 349106001599 Walker B; other site 349106001600 D-loop; other site 349106001601 H-loop/switch region; other site 349106001602 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 349106001603 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 349106001604 FtsZ protein binding site [polypeptide binding]; other site 349106001605 short chain dehydrogenase; Provisional; Region: PRK08251 349106001606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001607 NAD(P) binding site [chemical binding]; other site 349106001608 active site 349106001609 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 349106001610 catalytic core [active] 349106001611 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; cl11399 349106001612 Phosphotransferase enzyme family; Region: APH; pfam01636 349106001613 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 349106001614 putative active site [active] 349106001615 putative substrate binding site [chemical binding]; other site 349106001616 ATP binding site [chemical binding]; other site 349106001617 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349106001618 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106001619 active site 349106001620 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 349106001621 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 349106001622 nucleotide binding pocket [chemical binding]; other site 349106001623 K-X-D-G motif; other site 349106001624 catalytic site [active] 349106001625 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 349106001626 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 349106001627 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 349106001628 Dimer interface [polypeptide binding]; other site 349106001629 BRCT sequence motif; other site 349106001630 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349106001631 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349106001632 hydroxyglutarate oxidase; Provisional; Region: PRK11728 349106001633 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 349106001634 homotrimer interaction site [polypeptide binding]; other site 349106001635 putative active site [active] 349106001636 von Willebrand factor; Region: vWF_A; pfam12450 349106001637 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 349106001638 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 349106001639 metal ion-dependent adhesion site (MIDAS); other site 349106001640 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 349106001641 Protein of unknown function (DUF808); Region: DUF808; pfam05661 349106001642 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 349106001643 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 349106001644 homodimer interface [polypeptide binding]; other site 349106001645 oligonucleotide binding site [chemical binding]; other site 349106001646 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 349106001647 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 349106001648 RNA binding surface [nucleotide binding]; other site 349106001649 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349106001650 active site 349106001651 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 349106001652 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 349106001653 motif II; other site 349106001654 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 349106001655 UbiA prenyltransferase family; Region: UbiA; pfam01040 349106001656 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 349106001657 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 349106001658 elongation factor P; Validated; Region: PRK00529 349106001659 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 349106001660 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 349106001661 RNA binding site [nucleotide binding]; other site 349106001662 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 349106001663 RNA binding site [nucleotide binding]; other site 349106001664 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 349106001665 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 349106001666 FeS/SAM binding site; other site 349106001667 Cytochrome c; Region: Cytochrom_C; cl11414 349106001668 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 349106001669 Peptidase family M23; Region: Peptidase_M23; pfam01551 349106001670 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 349106001671 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106001672 active site 349106001673 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 349106001674 hypothetical protein; Reviewed; Region: PRK00024 349106001675 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 349106001676 MPN+ (JAMM) motif; other site 349106001677 Zinc-binding site [ion binding]; other site 349106001678 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 349106001679 Flavoprotein; Region: Flavoprotein; pfam02441 349106001680 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 349106001681 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 349106001682 dimer interface [polypeptide binding]; other site 349106001683 FMN binding site [chemical binding]; other site 349106001684 NADPH bind site [chemical binding]; other site 349106001685 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349106001686 endonuclease III; Region: ENDO3c; smart00478 349106001687 minor groove reading motif; other site 349106001688 helix-hairpin-helix signature motif; other site 349106001689 substrate binding pocket [chemical binding]; other site 349106001690 active site 349106001691 Predicted methyltransferases [General function prediction only]; Region: COG0313 349106001692 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 349106001693 putative SAM binding site [chemical binding]; other site 349106001694 putative homodimer interface [polypeptide binding]; other site 349106001695 hypothetical protein; Provisional; Region: PRK14687 349106001696 outer membrane lipoprotein; Provisional; Region: PRK11023 349106001697 BON domain; Region: BON; pfam04972 349106001698 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 349106001699 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349106001700 substrate binding pocket [chemical binding]; other site 349106001701 BolA-like protein; Region: BolA; pfam01722 349106001702 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 349106001703 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 349106001704 hinge; other site 349106001705 active site 349106001706 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 349106001707 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 349106001708 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 349106001709 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 349106001710 NAD binding site [chemical binding]; other site 349106001711 dimerization interface [polypeptide binding]; other site 349106001712 product binding site; other site 349106001713 substrate binding site [chemical binding]; other site 349106001714 zinc binding site [ion binding]; other site 349106001715 catalytic residues [active] 349106001716 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 349106001717 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 349106001718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001719 homodimer interface [polypeptide binding]; other site 349106001720 catalytic residue [active] 349106001721 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 349106001722 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 349106001723 EcsC protein family; Region: EcsC; pfam12787 349106001724 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 349106001725 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 349106001726 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349106001727 HlyD family secretion protein; Region: HlyD_3; pfam13437 349106001728 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349106001729 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 349106001730 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 349106001731 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 349106001732 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 349106001733 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 349106001734 amidase catalytic site [active] 349106001735 Zn binding residues [ion binding]; other site 349106001736 substrate binding site [chemical binding]; other site 349106001737 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 349106001738 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 349106001739 PGAP1-like protein; Region: PGAP1; pfam07819 349106001740 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 349106001741 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349106001742 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 349106001743 putative NAD(P) binding site [chemical binding]; other site 349106001744 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106001745 active site 349106001746 glutathione synthetase; Provisional; Region: PRK05246 349106001747 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 349106001748 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 349106001749 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 349106001750 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 349106001751 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 349106001752 active site 349106001753 homodimer interface [polypeptide binding]; other site 349106001754 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 349106001755 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349106001756 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106001757 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106001758 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 349106001759 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 349106001760 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349106001761 Cell division protein FtsQ; Region: FtsQ; pfam03799 349106001762 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 349106001763 Cell division protein FtsA; Region: FtsA; smart00842 349106001764 Cell division protein FtsA; Region: FtsA; pfam14450 349106001765 cell division protein FtsZ; Validated; Region: PRK09330 349106001766 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 349106001767 nucleotide binding site [chemical binding]; other site 349106001768 SulA interaction site; other site 349106001769 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 349106001770 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 349106001771 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 349106001772 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 349106001773 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 349106001774 S-adenosylmethionine binding site [chemical binding]; other site 349106001775 FtsH Extracellular; Region: FtsH_ext; pfam06480 349106001776 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 349106001777 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 349106001778 Walker A motif; other site 349106001779 ATP binding site [chemical binding]; other site 349106001780 Walker B motif; other site 349106001781 arginine finger; other site 349106001782 Peptidase family M41; Region: Peptidase_M41; pfam01434 349106001783 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 349106001784 dihydropteroate synthase; Region: DHPS; TIGR01496 349106001785 substrate binding pocket [chemical binding]; other site 349106001786 dimer interface [polypeptide binding]; other site 349106001787 inhibitor binding site; inhibition site 349106001788 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 349106001789 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 349106001790 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 349106001791 Glycoprotease family; Region: Peptidase_M22; pfam00814 349106001792 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 349106001793 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 349106001794 S-adenosylmethionine binding site [chemical binding]; other site 349106001795 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349106001796 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 349106001797 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 349106001798 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 349106001799 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 349106001800 dimerization interface [polypeptide binding]; other site 349106001801 ATP binding site [chemical binding]; other site 349106001802 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 349106001803 dimerization interface [polypeptide binding]; other site 349106001804 ATP binding site [chemical binding]; other site 349106001805 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 349106001806 putative active site [active] 349106001807 catalytic triad [active] 349106001808 Peptidase family M48; Region: Peptidase_M48; pfam01435 349106001809 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 349106001810 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 349106001811 amidase catalytic site [active] 349106001812 Zn binding residues [ion binding]; other site 349106001813 substrate binding site [chemical binding]; other site 349106001814 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349106001815 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 349106001816 Predicted membrane protein [Function unknown]; Region: COG2323 349106001817 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 349106001818 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 349106001819 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349106001820 active site 349106001821 catalytic site [active] 349106001822 substrate binding site [chemical binding]; other site 349106001823 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 349106001824 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 349106001825 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106001826 metal binding triad; other site 349106001827 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 349106001828 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 349106001829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001830 homodimer interface [polypeptide binding]; other site 349106001831 catalytic residue [active] 349106001832 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 349106001833 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106001834 metal binding triad; other site 349106001835 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349106001836 HD domain; Region: HD; pfam01966 349106001837 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 349106001838 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 349106001839 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 349106001840 active site 349106001841 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 349106001842 rRNA interaction site [nucleotide binding]; other site 349106001843 S8 interaction site; other site 349106001844 putative laminin-1 binding site; other site 349106001845 elongation factor Ts; Provisional; Region: tsf; PRK09377 349106001846 UBA/TS-N domain; Region: UBA; pfam00627 349106001847 Elongation factor TS; Region: EF_TS; pfam00889 349106001848 Elongation factor TS; Region: EF_TS; pfam00889 349106001849 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 349106001850 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 349106001851 putative monooxygenase; Provisional; Region: PRK11118 349106001852 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349106001853 EamA-like transporter family; Region: EamA; pfam00892 349106001854 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 349106001855 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106001856 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 349106001857 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 349106001858 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349106001859 putative active site [active] 349106001860 catalytic triad [active] 349106001861 putative dimer interface [polypeptide binding]; other site 349106001862 Sensors of blue-light using FAD; Region: BLUF; smart01034 349106001863 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349106001864 FAD binding domain; Region: FAD_binding_4; pfam01565 349106001865 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 349106001866 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 349106001867 ligand binding site [chemical binding]; other site 349106001868 NAD binding site [chemical binding]; other site 349106001869 tetramer interface [polypeptide binding]; other site 349106001870 catalytic site [active] 349106001871 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 349106001872 L-serine binding site [chemical binding]; other site 349106001873 ACT domain interface; other site 349106001874 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349106001875 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 349106001876 primosome assembly protein PriA; Validated; Region: PRK05580 349106001877 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 349106001878 ATP binding site [chemical binding]; other site 349106001879 putative Mg++ binding site [ion binding]; other site 349106001880 helicase superfamily c-terminal domain; Region: HELICc; smart00490 349106001881 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 349106001882 homotrimer interaction site [polypeptide binding]; other site 349106001883 putative active site [active] 349106001884 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349106001885 HD domain; Region: HD_4; pfam13328 349106001886 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349106001887 synthetase active site [active] 349106001888 NTP binding site [chemical binding]; other site 349106001889 metal binding site [ion binding]; metal-binding site 349106001890 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 349106001891 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 349106001892 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 349106001893 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 349106001894 catalytic site [active] 349106001895 G-X2-G-X-G-K; other site 349106001896 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 349106001897 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 349106001898 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 349106001899 heat shock protein 90; Provisional; Region: PRK05218 349106001900 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 349106001901 ATP binding site [chemical binding]; other site 349106001902 Mg2+ binding site [ion binding]; other site 349106001903 G-X-G motif; other site 349106001904 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 349106001905 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 349106001906 active site 349106001907 AMP-binding domain protein; Validated; Region: PRK08315 349106001908 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349106001909 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 349106001910 acyl-activating enzyme (AAE) consensus motif; other site 349106001911 putative AMP binding site [chemical binding]; other site 349106001912 putative active site [active] 349106001913 putative CoA binding site [chemical binding]; other site 349106001914 S-formylglutathione hydrolase; Region: PLN02442 349106001915 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 349106001916 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 349106001917 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 349106001918 substrate binding site [chemical binding]; other site 349106001919 hexamer interface [polypeptide binding]; other site 349106001920 metal binding site [ion binding]; metal-binding site 349106001921 transcription termination factor NusA; Region: NusA; TIGR01953 349106001922 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 349106001923 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 349106001924 muropeptide transporter; Validated; Region: ampG; cl17669 349106001925 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 349106001926 signal recognition particle protein; Provisional; Region: PRK10867 349106001927 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 349106001928 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 349106001929 P loop; other site 349106001930 GTP binding site [chemical binding]; other site 349106001931 Signal peptide binding domain; Region: SRP_SPB; pfam02978 349106001932 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 349106001933 metabolite-proton symporter; Region: 2A0106; TIGR00883 349106001934 putative substrate translocation pore; other site 349106001935 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 349106001936 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 349106001937 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 349106001938 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 349106001939 substrate binding pocket [chemical binding]; other site 349106001940 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 349106001941 B12 binding site [chemical binding]; other site 349106001942 cobalt ligand [ion binding]; other site 349106001943 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 349106001944 Fasciclin domain; Region: Fasciclin; pfam02469 349106001945 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 349106001946 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 349106001947 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 349106001948 Repair protein; Region: Repair_PSII; pfam04536 349106001949 Repair protein; Region: Repair_PSII; pfam04536 349106001950 NAD-dependent deacetylase; Provisional; Region: PRK00481 349106001951 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 349106001952 NAD+ binding site [chemical binding]; other site 349106001953 substrate binding site [chemical binding]; other site 349106001954 Zn binding site [ion binding]; other site 349106001955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106001956 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106001957 Probable transposase; Region: OrfB_IS605; pfam01385 349106001958 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106001959 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349106001960 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 349106001961 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349106001962 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 349106001963 Walker A/P-loop; other site 349106001964 ATP binding site [chemical binding]; other site 349106001965 Q-loop/lid; other site 349106001966 ABC transporter signature motif; other site 349106001967 Walker B; other site 349106001968 D-loop; other site 349106001969 H-loop/switch region; other site 349106001970 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 349106001971 inner membrane transport permease; Provisional; Region: PRK15066 349106001972 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 349106001973 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 349106001974 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 349106001975 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 349106001976 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349106001977 PYR/PP interface [polypeptide binding]; other site 349106001978 dimer interface [polypeptide binding]; other site 349106001979 TPP binding site [chemical binding]; other site 349106001980 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349106001981 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 349106001982 TPP-binding site [chemical binding]; other site 349106001983 dimer interface [polypeptide binding]; other site 349106001984 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 349106001985 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 349106001986 putative valine binding site [chemical binding]; other site 349106001987 dimer interface [polypeptide binding]; other site 349106001988 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 349106001989 ketol-acid reductoisomerase; Provisional; Region: PRK05479 349106001990 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 349106001991 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 349106001992 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 349106001993 DNA-binding site [nucleotide binding]; DNA binding site 349106001994 RNA-binding motif; other site 349106001995 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 349106001996 Ligand binding site [chemical binding]; other site 349106001997 Electron transfer flavoprotein domain; Region: ETF; pfam01012 349106001998 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 349106001999 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 349106002000 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 349106002001 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349106002002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106002003 Coenzyme A binding pocket [chemical binding]; other site 349106002004 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 349106002005 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 349106002006 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 349106002007 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 349106002008 thioredoxin reductase; Provisional; Region: PRK10262 349106002009 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106002010 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106002011 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 349106002012 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 349106002013 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 349106002014 Pirin-related protein [General function prediction only]; Region: COG1741 349106002015 Pirin; Region: Pirin; pfam02678 349106002016 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349106002017 Amidase; Region: Amidase; cl11426 349106002018 HI0933-like protein; Region: HI0933_like; pfam03486 349106002019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349106002020 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 349106002021 acetyl-CoA synthetase; Provisional; Region: PRK00174 349106002022 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 349106002023 active site 349106002024 CoA binding site [chemical binding]; other site 349106002025 acyl-activating enzyme (AAE) consensus motif; other site 349106002026 AMP binding site [chemical binding]; other site 349106002027 acetate binding site [chemical binding]; other site 349106002028 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 349106002029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349106002030 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106002031 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106002032 Probable transposase; Region: OrfB_IS605; pfam01385 349106002033 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106002034 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 349106002035 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 349106002036 active site 349106002037 Riboflavin kinase; Region: Flavokinase; smart00904 349106002038 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 349106002039 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 349106002040 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349106002041 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 349106002042 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 349106002043 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349106002044 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349106002045 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 349106002046 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 349106002047 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 349106002048 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 349106002049 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 349106002050 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 349106002051 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 349106002052 ligand binding site [chemical binding]; other site 349106002053 homodimer interface [polypeptide binding]; other site 349106002054 NAD(P) binding site [chemical binding]; other site 349106002055 trimer interface B [polypeptide binding]; other site 349106002056 trimer interface A [polypeptide binding]; other site 349106002057 hypothetical protein; Validated; Region: PRK02101 349106002058 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 349106002059 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 349106002060 ring oligomerisation interface [polypeptide binding]; other site 349106002061 ATP/Mg binding site [chemical binding]; other site 349106002062 stacking interactions; other site 349106002063 hinge regions; other site 349106002064 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 349106002065 oligomerisation interface [polypeptide binding]; other site 349106002066 mobile loop; other site 349106002067 roof hairpin; other site 349106002068 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 349106002069 active site 349106002070 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 349106002071 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 349106002072 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 349106002073 metal binding site [ion binding]; metal-binding site 349106002074 dimer interface [polypeptide binding]; other site 349106002075 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 349106002076 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 349106002077 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 349106002078 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 349106002079 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 349106002080 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 349106002081 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 349106002082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002083 NAD(P) binding site [chemical binding]; other site 349106002084 active site 349106002085 OsmC-like protein; Region: OsmC; pfam02566 349106002086 Protein of unknown function (DUF938); Region: DUF938; pfam06080 349106002087 potassium/proton antiporter; Reviewed; Region: PRK05326 349106002088 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 349106002089 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349106002090 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 349106002091 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349106002092 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 349106002093 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349106002094 HlyD family secretion protein; Region: HlyD_3; pfam13437 349106002095 Outer membrane efflux protein; Region: OEP; pfam02321 349106002096 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 349106002097 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 349106002098 tetramer interface [polypeptide binding]; other site 349106002099 heme binding pocket [chemical binding]; other site 349106002100 NADPH binding site [chemical binding]; other site 349106002101 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 349106002102 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 349106002103 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106002104 Walker A/P-loop; other site 349106002105 ATP binding site [chemical binding]; other site 349106002106 Q-loop/lid; other site 349106002107 ABC transporter signature motif; other site 349106002108 Walker B; other site 349106002109 D-loop; other site 349106002110 H-loop/switch region; other site 349106002111 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349106002112 ABC-ATPase subunit interface; other site 349106002113 dimer interface [polypeptide binding]; other site 349106002114 putative PBP binding regions; other site 349106002115 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349106002116 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349106002117 ABC-ATPase subunit interface; other site 349106002118 dimer interface [polypeptide binding]; other site 349106002119 putative PBP binding regions; other site 349106002120 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 349106002121 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 349106002122 putative ligand binding residues [chemical binding]; other site 349106002123 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 349106002124 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 349106002125 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 349106002126 transcriptional regulator NarL; Provisional; Region: PRK10651 349106002127 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 349106002128 active site 349106002129 phosphorylation site [posttranslational modification] 349106002130 intermolecular recognition site; other site 349106002131 dimerization interface [polypeptide binding]; other site 349106002132 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 349106002133 DNA binding residues [nucleotide binding] 349106002134 dimerization interface [polypeptide binding]; other site 349106002135 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 349106002136 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 349106002137 Histidine kinase; Region: HisKA_3; pfam07730 349106002138 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 349106002139 ATP binding site [chemical binding]; other site 349106002140 Mg2+ binding site [ion binding]; other site 349106002141 G-X-G motif; other site 349106002142 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 349106002143 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 349106002144 putative substrate translocation pore; other site 349106002145 nitrate reductase, beta subunit; Region: narH; TIGR01660 349106002146 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 349106002147 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 349106002148 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 349106002149 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 349106002150 heme-binding site [chemical binding]; other site 349106002151 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 349106002152 FAD binding pocket [chemical binding]; other site 349106002153 FAD binding motif [chemical binding]; other site 349106002154 phosphate binding motif [ion binding]; other site 349106002155 beta-alpha-beta structure motif; other site 349106002156 NAD binding pocket [chemical binding]; other site 349106002157 Heme binding pocket [chemical binding]; other site 349106002158 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 349106002159 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 349106002160 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 349106002161 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 349106002162 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 349106002163 ArsC family; Region: ArsC; pfam03960 349106002164 catalytic residues [active] 349106002165 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 349106002166 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 349106002167 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 349106002168 G1 box; other site 349106002169 GTP/Mg2+ binding site [chemical binding]; other site 349106002170 Switch I region; other site 349106002171 G2 box; other site 349106002172 G3 box; other site 349106002173 Switch II region; other site 349106002174 G4 box; other site 349106002175 G5 box; other site 349106002176 Nucleoside recognition; Region: Gate; pfam07670 349106002177 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 349106002178 Nucleoside recognition; Region: Gate; pfam07670 349106002179 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 349106002180 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 349106002181 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 349106002182 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106002183 putative GSH binding site (G-site) [chemical binding]; other site 349106002184 active site cysteine [active] 349106002185 putative C-terminal domain interface [polypeptide binding]; other site 349106002186 putative dimer interface [polypeptide binding]; other site 349106002187 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 349106002188 putative N-terminal domain interface [polypeptide binding]; other site 349106002189 putative dimer interface [polypeptide binding]; other site 349106002190 putative substrate binding pocket (H-site) [chemical binding]; other site 349106002191 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106002192 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349106002193 Walker A/P-loop; other site 349106002194 ATP binding site [chemical binding]; other site 349106002195 Q-loop/lid; other site 349106002196 ABC transporter signature motif; other site 349106002197 Walker B; other site 349106002198 D-loop; other site 349106002199 H-loop/switch region; other site 349106002200 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106002201 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 349106002202 dimer interface [polypeptide binding]; other site 349106002203 conserved gate region; other site 349106002204 putative PBP binding loops; other site 349106002205 ABC-ATPase subunit interface; other site 349106002206 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 349106002207 dimer interface [polypeptide binding]; other site 349106002208 conserved gate region; other site 349106002209 putative PBP binding loops; other site 349106002210 ABC-ATPase subunit interface; other site 349106002211 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 349106002212 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106002213 substrate binding pocket [chemical binding]; other site 349106002214 membrane-bound complex binding site; other site 349106002215 hinge residues; other site 349106002216 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 349106002217 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 349106002218 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 349106002219 salt bridge; other site 349106002220 non-specific DNA binding site [nucleotide binding]; other site 349106002221 sequence-specific DNA binding site [nucleotide binding]; other site 349106002222 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 349106002223 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 349106002224 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 349106002225 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 349106002226 active site 349106002227 DNA binding site [nucleotide binding] 349106002228 Int/Topo IB signature motif; other site 349106002229 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 349106002230 reactive center loop; other site 349106002231 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 349106002232 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 349106002233 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 349106002234 FAD binding pocket [chemical binding]; other site 349106002235 FAD binding motif [chemical binding]; other site 349106002236 phosphate binding motif [ion binding]; other site 349106002237 beta-alpha-beta structure motif; other site 349106002238 NAD binding pocket [chemical binding]; other site 349106002239 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 349106002240 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 349106002241 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 349106002242 active site 349106002243 phosphorylation site [posttranslational modification] 349106002244 intermolecular recognition site; other site 349106002245 dimerization interface [polypeptide binding]; other site 349106002246 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 349106002247 DNA binding site [nucleotide binding] 349106002248 sensor protein QseC; Provisional; Region: PRK10337 349106002249 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 349106002250 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 349106002251 dimer interface [polypeptide binding]; other site 349106002252 phosphorylation site [posttranslational modification] 349106002253 Cytochrome P450; Region: p450; cl12078 349106002254 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 349106002255 ATP binding site [chemical binding]; other site 349106002256 Mg2+ binding site [ion binding]; other site 349106002257 G-X-G motif; other site 349106002258 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 349106002259 ApbE family; Region: ApbE; pfam02424 349106002260 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 349106002261 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 349106002262 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 349106002263 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106002264 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106002265 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 349106002266 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349106002267 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 349106002268 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 349106002269 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 349106002270 dimer interface [polypeptide binding]; other site 349106002271 phosphorylation site [posttranslational modification] 349106002272 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 349106002273 ATP binding site [chemical binding]; other site 349106002274 Mg2+ binding site [ion binding]; other site 349106002275 G-X-G motif; other site 349106002276 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 349106002277 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 349106002278 active site 349106002279 phosphorylation site [posttranslational modification] 349106002280 intermolecular recognition site; other site 349106002281 dimerization interface [polypeptide binding]; other site 349106002282 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 349106002283 DNA binding site [nucleotide binding] 349106002284 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 349106002285 Protein of unknown function, DUF; Region: DUF411; cl01142 349106002286 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 349106002287 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 349106002288 Multicopper oxidase; Region: Cu-oxidase; pfam00394 349106002289 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 349106002290 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 349106002291 Domain of unknown function (DUF305); Region: DUF305; cl17794 349106002292 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349106002293 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349106002294 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 349106002295 motif II; other site 349106002296 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 349106002297 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 349106002298 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 349106002299 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 349106002300 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 349106002301 multiple promoter invertase; Provisional; Region: mpi; PRK13413 349106002302 catalytic residues [active] 349106002303 catalytic nucleophile [active] 349106002304 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; cd00569 349106002305 DNA-binding interface [nucleotide binding]; DNA binding site 349106002306 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349106002307 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 349106002308 conserved cys residue [active] 349106002309 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349106002310 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 349106002311 Isochorismatase family; Region: Isochorismatase; pfam00857 349106002312 catalytic triad [active] 349106002313 conserved cis-peptide bond; other site 349106002314 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 349106002315 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 349106002316 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 349106002317 Fic family protein [Function unknown]; Region: COG3177 349106002318 Fic/DOC family; Region: Fic; pfam02661 349106002319 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 349106002320 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 349106002321 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 349106002322 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 349106002323 active site 349106002324 DNA binding site [nucleotide binding] 349106002325 Int/Topo IB signature motif; other site 349106002326 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106002327 Transposase; Region: HTH_Tnp_1; pfam01527 349106002328 putative transposase OrfB; Reviewed; Region: PHA02517 349106002329 HTH-like domain; Region: HTH_21; pfam13276 349106002330 Integrase core domain; Region: rve; pfam00665 349106002331 Integrase core domain; Region: rve_3; pfam13683 349106002332 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 349106002333 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349106002334 DNA-binding site [nucleotide binding]; DNA binding site 349106002335 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 349106002336 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349106002337 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 349106002338 maleylacetoacetate isomerase; Region: maiA; TIGR01262 349106002339 C-terminal domain interface [polypeptide binding]; other site 349106002340 GSH binding site (G-site) [chemical binding]; other site 349106002341 putative dimer interface [polypeptide binding]; other site 349106002342 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 349106002343 dimer interface [polypeptide binding]; other site 349106002344 N-terminal domain interface [polypeptide binding]; other site 349106002345 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 349106002346 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106002347 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 349106002348 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106002349 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 349106002350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106002351 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 349106002352 substrate binding pocket [chemical binding]; other site 349106002353 dimerization interface [polypeptide binding]; other site 349106002354 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 349106002355 Cupin domain; Region: Cupin_2; pfam07883 349106002356 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 349106002357 maleylacetoacetate isomerase; Region: maiA; TIGR01262 349106002358 C-terminal domain interface [polypeptide binding]; other site 349106002359 GSH binding site (G-site) [chemical binding]; other site 349106002360 putative dimer interface [polypeptide binding]; other site 349106002361 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 349106002362 dimer interface [polypeptide binding]; other site 349106002363 N-terminal domain interface [polypeptide binding]; other site 349106002364 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 349106002365 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 349106002366 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 349106002367 benzoate transport; Region: 2A0115; TIGR00895 349106002368 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 349106002369 putative substrate translocation pore; other site 349106002370 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 349106002371 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106002372 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 349106002373 NAD(P) binding site [chemical binding]; other site 349106002374 catalytic residues [active] 349106002375 benzoylformate decarboxylase; Reviewed; Region: PRK07092 349106002376 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349106002377 PYR/PP interface [polypeptide binding]; other site 349106002378 dimer interface [polypeptide binding]; other site 349106002379 TPP binding site [chemical binding]; other site 349106002380 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349106002381 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 349106002382 TPP-binding site [chemical binding]; other site 349106002383 dimer interface [polypeptide binding]; other site 349106002384 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 349106002385 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349106002386 ABC-ATPase subunit interface; other site 349106002387 dimer interface [polypeptide binding]; other site 349106002388 putative PBP binding regions; other site 349106002389 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349106002390 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 349106002391 intersubunit interface [polypeptide binding]; other site 349106002392 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349106002393 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106002394 Walker A/P-loop; other site 349106002395 ATP binding site [chemical binding]; other site 349106002396 Q-loop/lid; other site 349106002397 ABC transporter signature motif; other site 349106002398 Walker B; other site 349106002399 D-loop; other site 349106002400 H-loop/switch region; other site 349106002401 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 349106002402 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 349106002403 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 349106002404 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 349106002405 TrkA-N domain; Region: TrkA_N; pfam02254 349106002406 prolyl-tRNA synthetase; Provisional; Region: PRK09194 349106002407 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 349106002408 dimer interface [polypeptide binding]; other site 349106002409 motif 1; other site 349106002410 active site 349106002411 motif 2; other site 349106002412 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 349106002413 putative deacylase active site [active] 349106002414 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 349106002415 active site 349106002416 motif 3; other site 349106002417 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 349106002418 anticodon binding site; other site 349106002419 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 349106002420 DNA photolyase; Region: DNA_photolyase; pfam00875 349106002421 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 349106002422 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 349106002423 active site 349106002424 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 349106002425 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 349106002426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002427 catalytic residue [active] 349106002428 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 349106002429 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 349106002430 substrate binding site [chemical binding]; other site 349106002431 active site 349106002432 catalytic residues [active] 349106002433 heterodimer interface [polypeptide binding]; other site 349106002434 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 349106002435 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 349106002436 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 349106002437 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106002438 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 349106002439 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 349106002440 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349106002441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106002442 Walker A/P-loop; other site 349106002443 ATP binding site [chemical binding]; other site 349106002444 Q-loop/lid; other site 349106002445 ABC transporter signature motif; other site 349106002446 Walker B; other site 349106002447 D-loop; other site 349106002448 H-loop/switch region; other site 349106002449 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349106002450 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 349106002451 HlyD family secretion protein; Region: HlyD_3; pfam13437 349106002452 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106002453 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 349106002454 NAD(P) binding site [chemical binding]; other site 349106002455 catalytic residues [active] 349106002456 Transcriptional regulator; Region: Rrf2; cl17282 349106002457 Rrf2 family protein; Region: rrf2_super; TIGR00738 349106002458 NnrS protein; Region: NnrS; pfam05940 349106002459 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 349106002460 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 349106002461 ATP binding site [chemical binding]; other site 349106002462 substrate interface [chemical binding]; other site 349106002463 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 349106002464 ABC1 family; Region: ABC1; pfam03109 349106002465 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 349106002466 Dehydroquinase class II; Region: DHquinase_II; pfam01220 349106002467 active site 349106002468 trimer interface [polypeptide binding]; other site 349106002469 dimer interface [polypeptide binding]; other site 349106002470 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 349106002471 DNA-binding site [nucleotide binding]; DNA binding site 349106002472 RNA-binding motif; other site 349106002473 helicase 45; Provisional; Region: PTZ00424 349106002474 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 349106002475 ATP binding site [chemical binding]; other site 349106002476 Mg++ binding site [ion binding]; other site 349106002477 motif III; other site 349106002478 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 349106002479 nucleotide binding region [chemical binding]; other site 349106002480 ATP-binding site [chemical binding]; other site 349106002481 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 349106002482 Family description; Region: DsbD_2; pfam13386 349106002483 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 349106002484 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 349106002485 putative active site [active] 349106002486 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 349106002487 FAD binding domain; Region: FAD_binding_4; pfam01565 349106002488 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 349106002489 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 349106002490 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349106002491 active site 349106002492 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 349106002493 RNA binding surface [nucleotide binding]; other site 349106002494 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 349106002495 threonine dehydratase; Reviewed; Region: PRK09224 349106002496 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 349106002497 tetramer interface [polypeptide binding]; other site 349106002498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002499 catalytic residue [active] 349106002500 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 349106002501 putative Ile/Val binding site [chemical binding]; other site 349106002502 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 349106002503 putative Ile/Val binding site [chemical binding]; other site 349106002504 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 349106002505 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349106002506 active site 349106002507 dimer interface [polypeptide binding]; other site 349106002508 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 349106002509 TAP-like protein; Region: Abhydrolase_4; pfam08386 349106002510 ornithine carbamoyltransferase; Provisional; Region: PRK00779 349106002511 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349106002512 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 349106002513 alanine racemase; Reviewed; Region: alr; PRK00053 349106002514 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 349106002515 active site 349106002516 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106002517 substrate binding site [chemical binding]; other site 349106002518 catalytic residues [active] 349106002519 dimer interface [polypeptide binding]; other site 349106002520 ABC1 family; Region: ABC1; cl17513 349106002521 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 349106002522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 349106002523 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 349106002524 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 349106002525 S-adenosylmethionine binding site [chemical binding]; other site 349106002526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 349106002527 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 349106002528 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 349106002529 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 349106002530 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 349106002531 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 349106002532 Domain of unknown function (DUF697); Region: DUF697; cl12064 349106002533 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 349106002534 DHH family; Region: DHH; pfam01368 349106002535 DHHA1 domain; Region: DHHA1; pfam02272 349106002536 Predicted membrane protein [Function unknown]; Region: COG2860 349106002537 UPF0126 domain; Region: UPF0126; pfam03458 349106002538 UPF0126 domain; Region: UPF0126; pfam03458 349106002539 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 349106002540 glutathione S-transferase; Provisional; Region: PRK15113 349106002541 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106002542 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106002543 N-terminal domain interface [polypeptide binding]; other site 349106002544 dimer interface [polypeptide binding]; other site 349106002545 substrate binding pocket (H-site) [chemical binding]; other site 349106002546 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 349106002547 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 349106002548 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 349106002549 Qi binding site; other site 349106002550 intrachain domain interface; other site 349106002551 interchain domain interface [polypeptide binding]; other site 349106002552 heme bH binding site [chemical binding]; other site 349106002553 heme bL binding site [chemical binding]; other site 349106002554 Qo binding site; other site 349106002555 interchain domain interface [polypeptide binding]; other site 349106002556 intrachain domain interface; other site 349106002557 Qi binding site; other site 349106002558 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 349106002559 Qo binding site; other site 349106002560 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 349106002561 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 349106002562 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 349106002563 [2Fe-2S] cluster binding site [ion binding]; other site 349106002564 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 349106002565 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 349106002566 23S rRNA interface [nucleotide binding]; other site 349106002567 L3 interface [polypeptide binding]; other site 349106002568 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 349106002569 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 349106002570 S-adenosylmethionine binding site [chemical binding]; other site 349106002571 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349106002572 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349106002573 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 349106002574 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 349106002575 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 349106002576 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 349106002577 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 349106002578 catalytic residues [active] 349106002579 central insert; other site 349106002580 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 349106002581 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 349106002582 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 349106002583 adenylate kinase; Reviewed; Region: adk; PRK00279 349106002584 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 349106002585 AMP-binding site [chemical binding]; other site 349106002586 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 349106002587 preprotein translocase subunit SecB; Validated; Region: PRK05751 349106002588 SecA binding site; other site 349106002589 Preprotein binding site; other site 349106002590 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 349106002591 GSH binding site [chemical binding]; other site 349106002592 catalytic residues [active] 349106002593 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 349106002594 active site residue [active] 349106002595 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 349106002596 RNA binding site [nucleotide binding]; other site 349106002597 GTPase RsgA; Reviewed; Region: PRK00098 349106002598 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 349106002599 GTPase/Zn-binding domain interface [polypeptide binding]; other site 349106002600 GTP/Mg2+ binding site [chemical binding]; other site 349106002601 G4 box; other site 349106002602 G5 box; other site 349106002603 G1 box; other site 349106002604 Switch I region; other site 349106002605 G2 box; other site 349106002606 G3 box; other site 349106002607 Switch II region; other site 349106002608 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 349106002609 catalytic site [active] 349106002610 putative active site [active] 349106002611 putative substrate binding site [chemical binding]; other site 349106002612 dimer interface [polypeptide binding]; other site 349106002613 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 349106002614 putative active site [active] 349106002615 putative metal binding site [ion binding]; other site 349106002616 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 349106002617 substrate binding site [chemical binding]; other site 349106002618 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 349106002619 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106002620 active site 349106002621 HIGH motif; other site 349106002622 nucleotide binding site [chemical binding]; other site 349106002623 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 349106002624 KMSKS motif; other site 349106002625 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 349106002626 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 349106002627 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 349106002628 non-specific DNA binding site [nucleotide binding]; other site 349106002629 salt bridge; other site 349106002630 sequence-specific DNA binding site [nucleotide binding]; other site 349106002631 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 349106002632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002633 homodimer interface [polypeptide binding]; other site 349106002634 catalytic residue [active] 349106002635 methionine sulfoxide reductase B; Provisional; Region: PRK00222 349106002636 SelR domain; Region: SelR; pfam01641 349106002637 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 349106002638 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 349106002639 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 349106002640 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 349106002641 ATP binding site [chemical binding]; other site 349106002642 Mg2+ binding site [ion binding]; other site 349106002643 G-X-G motif; other site 349106002644 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 349106002645 ATP binding site [chemical binding]; other site 349106002646 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 349106002647 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 349106002648 bacterial Hfq-like; Region: Hfq; cd01716 349106002649 hexamer interface [polypeptide binding]; other site 349106002650 Sm1 motif; other site 349106002651 RNA binding site [nucleotide binding]; other site 349106002652 Sm2 motif; other site 349106002653 KpsF/GutQ family protein; Region: kpsF; TIGR00393 349106002654 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 349106002655 putative active site [active] 349106002656 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 349106002657 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 349106002658 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 349106002659 active site 349106002660 motif I; other site 349106002661 motif II; other site 349106002662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 349106002663 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 349106002664 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 349106002665 OstA-like protein; Region: OstA; pfam03968 349106002666 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 349106002667 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 349106002668 Walker A/P-loop; other site 349106002669 ATP binding site [chemical binding]; other site 349106002670 Q-loop/lid; other site 349106002671 ABC transporter signature motif; other site 349106002672 Walker B; other site 349106002673 D-loop; other site 349106002674 H-loop/switch region; other site 349106002675 DNA repair protein RadA; Provisional; Region: PRK11823 349106002676 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 349106002677 Walker A motif; other site 349106002678 ATP binding site [chemical binding]; other site 349106002679 Walker B motif; other site 349106002680 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 349106002681 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 349106002682 dimer interface [polypeptide binding]; other site 349106002683 substrate binding site [chemical binding]; other site 349106002684 ATP binding site [chemical binding]; other site 349106002685 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 349106002686 thiamine phosphate binding site [chemical binding]; other site 349106002687 active site 349106002688 pyrophosphate binding site [ion binding]; other site 349106002689 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 349106002690 substrate binding site [chemical binding]; other site 349106002691 multimerization interface [polypeptide binding]; other site 349106002692 ATP binding site [chemical binding]; other site 349106002693 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 349106002694 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 349106002695 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 349106002696 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 349106002697 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349106002698 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 349106002699 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106002700 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 349106002701 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 349106002702 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106002703 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349106002704 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 349106002705 IMP binding site; other site 349106002706 dimer interface [polypeptide binding]; other site 349106002707 interdomain contacts; other site 349106002708 partial ornithine binding site; other site 349106002709 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 349106002710 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 349106002711 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 349106002712 catalytic site [active] 349106002713 subunit interface [polypeptide binding]; other site 349106002714 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 349106002715 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349106002716 active site 349106002717 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 349106002718 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 349106002719 trimer interface [polypeptide binding]; other site 349106002720 putative metal binding site [ion binding]; other site 349106002721 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 349106002722 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 349106002723 motif II; other site 349106002724 peptide chain release factor 2; Provisional; Region: PRK08787 349106002725 This domain is found in peptide chain release factors; Region: PCRF; smart00937 349106002726 RF-1 domain; Region: RF-1; pfam00472 349106002727 Predicted membrane protein [Function unknown]; Region: COG2259 349106002728 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349106002729 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 349106002730 motif II; other site 349106002731 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349106002732 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 349106002733 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 349106002734 putative dimer interface [polypeptide binding]; other site 349106002735 active site pocket [active] 349106002736 putative cataytic base [active] 349106002737 cobalamin synthase; Reviewed; Region: cobS; PRK00235 349106002738 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; cl11399 349106002739 HPP family; Region: HPP; pfam04982 349106002740 MarC family integral membrane protein; Region: MarC; cl00919 349106002741 imidazolonepropionase; Validated; Region: PRK09356 349106002742 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 349106002743 active site 349106002744 formimidoylglutamase; Provisional; Region: PRK13775 349106002745 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 349106002746 putative active site [active] 349106002747 putative metal binding site [ion binding]; other site 349106002748 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 349106002749 active sites [active] 349106002750 tetramer interface [polypeptide binding]; other site 349106002751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 349106002752 Nucleoside recognition; Region: Gate; pfam07670 349106002753 urocanate hydratase; Provisional; Region: PRK05414 349106002754 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 349106002755 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349106002756 DNA-binding site [nucleotide binding]; DNA binding site 349106002757 UTRA domain; Region: UTRA; pfam07702 349106002758 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 349106002759 putative DNA binding site [nucleotide binding]; other site 349106002760 dimerization interface [polypeptide binding]; other site 349106002761 putative Zn2+ binding site [ion binding]; other site 349106002762 Predicted transporter component [General function prediction only]; Region: COG2391 349106002763 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 349106002764 Predicted transporter component [General function prediction only]; Region: COG2391 349106002765 Sulphur transport; Region: Sulf_transp; pfam04143 349106002766 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349106002767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106002768 Coenzyme A binding pocket [chemical binding]; other site 349106002769 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 349106002770 hypothetical protein; Reviewed; Region: PRK09588 349106002771 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349106002772 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349106002773 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 349106002774 Walker A/P-loop; other site 349106002775 ATP binding site [chemical binding]; other site 349106002776 Q-loop/lid; other site 349106002777 ABC transporter signature motif; other site 349106002778 Walker B; other site 349106002779 D-loop; other site 349106002780 H-loop/switch region; other site 349106002781 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 349106002782 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 349106002783 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 349106002784 active site 349106002785 acyl-activating enzyme (AAE) consensus motif; other site 349106002786 putative CoA binding site [chemical binding]; other site 349106002787 AMP binding site [chemical binding]; other site 349106002788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002789 NAD(P) binding site [chemical binding]; other site 349106002790 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 349106002791 active site 349106002792 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 349106002793 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 349106002794 active site 349106002795 DNA binding site [nucleotide binding] 349106002796 Int/Topo IB signature motif; other site 349106002797 catalytic residues [active] 349106002798 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 349106002799 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 349106002800 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 349106002801 putative active site [active] 349106002802 catalytic site [active] 349106002803 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 349106002804 putative active site [active] 349106002805 catalytic site [active] 349106002806 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 349106002807 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 349106002808 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 349106002809 RNA methyltransferase, RsmE family; Region: TIGR00046 349106002810 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 349106002811 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 349106002812 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349106002813 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 349106002814 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 349106002815 dimer interface [polypeptide binding]; other site 349106002816 conserved gate region; other site 349106002817 putative PBP binding loops; other site 349106002818 ABC-ATPase subunit interface; other site 349106002819 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 349106002820 dimer interface [polypeptide binding]; other site 349106002821 conserved gate region; other site 349106002822 putative PBP binding loops; other site 349106002823 ABC-ATPase subunit interface; other site 349106002824 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349106002825 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 349106002826 Walker A/P-loop; other site 349106002827 ATP binding site [chemical binding]; other site 349106002828 Q-loop/lid; other site 349106002829 ABC transporter signature motif; other site 349106002830 Walker B; other site 349106002831 D-loop; other site 349106002832 H-loop/switch region; other site 349106002833 TOBE domain; Region: TOBE_2; pfam08402 349106002834 ubiquinone biosynthesis O-methyltransferase; Region: UbiG; TIGR01983 349106002835 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 349106002836 DNA gyrase subunit A; Validated; Region: PRK05560 349106002837 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 349106002838 CAP-like domain; other site 349106002839 active site 349106002840 primary dimer interface [polypeptide binding]; other site 349106002841 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002842 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002843 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002844 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002845 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002846 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002847 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 349106002848 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106002849 putative C-terminal domain interface [polypeptide binding]; other site 349106002850 putative GSH binding site (G-site) [chemical binding]; other site 349106002851 putative dimer interface [polypeptide binding]; other site 349106002852 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 349106002853 putative N-terminal domain interface [polypeptide binding]; other site 349106002854 putative dimer interface [polypeptide binding]; other site 349106002855 putative substrate binding pocket (H-site) [chemical binding]; other site 349106002856 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 349106002857 Clp amino terminal domain; Region: Clp_N; pfam02861 349106002858 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 349106002859 Walker A motif; other site 349106002860 ATP binding site [chemical binding]; other site 349106002861 Walker B motif; other site 349106002862 arginine finger; other site 349106002863 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 349106002864 Walker A motif; other site 349106002865 ATP binding site [chemical binding]; other site 349106002866 Walker B motif; other site 349106002867 arginine finger; other site 349106002868 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 349106002869 BCCT family transporter; Region: BCCT; pfam02028 349106002870 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 349106002871 S-adenosylmethionine synthetase; Validated; Region: PRK05250 349106002872 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 349106002873 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 349106002874 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 349106002875 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 349106002876 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349106002877 minor groove reading motif; other site 349106002878 helix-hairpin-helix signature motif; other site 349106002879 substrate binding pocket [chemical binding]; other site 349106002880 active site 349106002881 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 349106002882 ferredoxin; Provisional; Region: PRK08764 349106002883 Putative Fe-S cluster; Region: FeS; cl17515 349106002884 4Fe-4S binding domain; Region: Fer4; pfam00037 349106002885 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 349106002886 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 349106002887 Protein export membrane protein; Region: SecD_SecF; cl14618 349106002888 Protein export membrane protein; Region: SecD_SecF; cl14618 349106002889 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349106002890 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349106002891 HlyD family secretion protein; Region: HlyD_3; pfam13437 349106002892 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349106002893 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349106002894 substrate binding pocket [chemical binding]; other site 349106002895 chain length determination region; other site 349106002896 substrate-Mg2+ binding site; other site 349106002897 catalytic residues [active] 349106002898 aspartate-rich region 1; other site 349106002899 active site lid residues [active] 349106002900 aspartate-rich region 2; other site 349106002901 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 349106002902 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 349106002903 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 349106002904 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 349106002905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106002906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106002907 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 349106002908 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 349106002909 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 349106002910 FeS/SAM binding site; other site 349106002911 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 349106002912 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 349106002913 active site 349106002914 substrate binding site [chemical binding]; other site 349106002915 trimer interface [polypeptide binding]; other site 349106002916 CoA binding site [chemical binding]; other site 349106002917 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 349106002918 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 349106002919 lipoyl synthase; Provisional; Region: PRK05481 349106002920 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 349106002921 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 349106002922 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 349106002923 substrate binding site [chemical binding]; other site 349106002924 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 349106002925 substrate binding site [chemical binding]; other site 349106002926 ligand binding site [chemical binding]; other site 349106002927 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 349106002928 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 349106002929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002930 homodimer interface [polypeptide binding]; other site 349106002931 catalytic residue [active] 349106002932 enoyl-CoA hydratase; Provisional; Region: PRK06688 349106002933 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 349106002934 substrate binding site [chemical binding]; other site 349106002935 oxyanion hole (OAH) forming residues; other site 349106002936 trimer interface [polypeptide binding]; other site 349106002937 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 349106002938 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 349106002939 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 349106002940 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106002941 catalytic residue [active] 349106002942 replicative DNA helicase; Region: DnaB; TIGR00665 349106002943 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 349106002944 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 349106002945 Walker A motif; other site 349106002946 ATP binding site [chemical binding]; other site 349106002947 Walker B motif; other site 349106002948 DNA binding loops [nucleotide binding] 349106002949 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 349106002950 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 349106002951 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 349106002952 S-adenosylmethionine binding site [chemical binding]; other site 349106002953 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 349106002954 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 349106002955 active site 349106002956 metal binding site [ion binding]; metal-binding site 349106002957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002958 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349106002959 NAD(P) binding site [chemical binding]; other site 349106002960 active site 349106002961 Site-specific recombinase; Region: SpecificRecomb; pfam10136 349106002962 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106002963 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106002964 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106002965 active site 349106002966 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106002967 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106002968 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106002969 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106002970 active site 349106002971 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106002972 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 349106002973 RNA methyltransferase, RsmE family; Region: TIGR00046 349106002974 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 349106002975 FAD binding site [chemical binding]; other site 349106002976 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 349106002977 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 349106002978 homotetramer interface [polypeptide binding]; other site 349106002979 ligand binding site [chemical binding]; other site 349106002980 catalytic site [active] 349106002981 NAD binding site [chemical binding]; other site 349106002982 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 349106002983 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 349106002984 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349106002985 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106002986 ligand binding site [chemical binding]; other site 349106002987 aminopeptidase N; Provisional; Region: pepN; PRK14015 349106002988 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349106002989 Zn binding site [ion binding]; other site 349106002990 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 349106002991 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 349106002992 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 349106002993 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 349106002994 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 349106002995 RNA/DNA hybrid binding site [nucleotide binding]; other site 349106002996 active site 349106002997 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106002998 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 349106002999 diiron binding motif [ion binding]; other site 349106003000 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349106003001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349106003002 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349106003003 HemK family putative methylases; Region: hemK_fam; TIGR00536 349106003004 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 349106003005 S-adenosylmethionine binding site [chemical binding]; other site 349106003006 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 349106003007 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 349106003008 Tetramer interface [polypeptide binding]; other site 349106003009 active site 349106003010 FMN-binding site [chemical binding]; other site 349106003011 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 349106003012 putative FMN binding site [chemical binding]; other site 349106003013 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 349106003014 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 349106003015 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 349106003016 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 349106003017 catalytic core [active] 349106003018 Predicted membrane protein [Function unknown]; Region: COG3671 349106003019 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 349106003020 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 349106003021 quinone interaction residues [chemical binding]; other site 349106003022 active site 349106003023 catalytic residues [active] 349106003024 FMN binding site [chemical binding]; other site 349106003025 substrate binding site [chemical binding]; other site 349106003026 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 349106003027 Colicin V production protein; Region: Colicin_V; pfam02674 349106003028 amidophosphoribosyltransferase; Provisional; Region: PRK09246 349106003029 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 349106003030 active site 349106003031 tetramer interface [polypeptide binding]; other site 349106003032 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106003033 active site 349106003034 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 349106003035 homotrimer interaction site [polypeptide binding]; other site 349106003036 putative active site [active] 349106003037 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 349106003038 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 349106003039 transmembrane helices; other site 349106003040 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 349106003041 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 349106003042 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 349106003043 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 349106003044 Protein export membrane protein; Region: SecD_SecF; pfam02355 349106003045 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 349106003046 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 349106003047 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 349106003048 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 349106003049 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 349106003050 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 349106003051 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 349106003052 active site 349106003053 dimer interface [polypeptide binding]; other site 349106003054 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349106003055 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349106003056 active site 349106003057 metal binding site [ion binding]; metal-binding site 349106003058 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 349106003059 catalytic core [active] 349106003060 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 349106003061 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 349106003062 RDD family; Region: RDD; pfam06271 349106003063 phosphoenolpyruvate synthase; Validated; Region: PRK06464 349106003064 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 349106003065 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 349106003066 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 349106003067 PEP synthetase regulatory protein; Provisional; Region: PRK05339 349106003068 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 349106003069 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106003070 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106003071 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 349106003072 HIT family signature motif; other site 349106003073 catalytic residue [active] 349106003074 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 349106003075 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 349106003076 FMN binding site [chemical binding]; other site 349106003077 active site 349106003078 catalytic residues [active] 349106003079 substrate binding site [chemical binding]; other site 349106003080 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 349106003081 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349106003082 Walker A/P-loop; other site 349106003083 ATP binding site [chemical binding]; other site 349106003084 Q-loop/lid; other site 349106003085 ABC transporter signature motif; other site 349106003086 Walker B; other site 349106003087 D-loop; other site 349106003088 H-loop/switch region; other site 349106003089 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349106003090 Walker A/P-loop; other site 349106003091 ATP binding site [chemical binding]; other site 349106003092 Q-loop/lid; other site 349106003093 ABC transporter signature motif; other site 349106003094 Walker B; other site 349106003095 D-loop; other site 349106003096 H-loop/switch region; other site 349106003097 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106003098 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 349106003099 GTP cyclohydrolase I; Provisional; Region: PLN03044 349106003100 homodecamer interface [polypeptide binding]; other site 349106003101 active site 349106003102 putative catalytic site residues [active] 349106003103 zinc binding site [ion binding]; other site 349106003104 GTP-CH-I/GFRP interaction surface; other site 349106003105 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 349106003106 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 349106003107 NAD binding site [chemical binding]; other site 349106003108 homotetramer interface [polypeptide binding]; other site 349106003109 homodimer interface [polypeptide binding]; other site 349106003110 substrate binding site [chemical binding]; other site 349106003111 active site 349106003112 Cupin superfamily protein; Region: Cupin_4; pfam08007 349106003113 adenylosuccinate lyase; Provisional; Region: PRK09285 349106003114 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 349106003115 tetramer interface [polypeptide binding]; other site 349106003116 active site 349106003117 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 349106003118 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 349106003119 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 349106003120 homotrimer interaction site [polypeptide binding]; other site 349106003121 zinc binding site [ion binding]; other site 349106003122 CDP-binding sites; other site 349106003123 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 349106003124 putative GSH binding site [chemical binding]; other site 349106003125 catalytic residues [active] 349106003126 sensory histidine kinase CreC; Provisional; Region: PRK11100 349106003127 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 349106003128 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 349106003129 dimer interface [polypeptide binding]; other site 349106003130 phosphorylation site [posttranslational modification] 349106003131 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 349106003132 ATP binding site [chemical binding]; other site 349106003133 Mg2+ binding site [ion binding]; other site 349106003134 G-X-G motif; other site 349106003135 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349106003136 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 349106003137 active site 349106003138 phosphorylation site [posttranslational modification] 349106003139 intermolecular recognition site; other site 349106003140 dimerization interface [polypeptide binding]; other site 349106003141 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 349106003142 DNA binding site [nucleotide binding] 349106003143 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 349106003144 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 349106003145 Putative serine esterase (DUF676); Region: DUF676; pfam05057 349106003146 lipase chaperone; Provisional; Region: PRK01294 349106003147 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 349106003148 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 349106003149 dimer interface [polypeptide binding]; other site 349106003150 substrate binding site [chemical binding]; other site 349106003151 metal binding sites [ion binding]; metal-binding site 349106003152 Entericidin EcnA/B family; Region: Entericidin; cl02322 349106003153 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 349106003154 DsrC like protein; Region: DsrC; pfam04358 349106003155 DsrE/DsrF-like family; Region: DrsE; cl00672 349106003156 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106003157 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 349106003158 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 349106003159 active site 349106003160 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349106003161 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 349106003162 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106003163 metal binding triad; other site 349106003164 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349106003165 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106003166 metal binding triad; other site 349106003167 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349106003168 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 349106003169 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 349106003170 homodimer interface [polypeptide binding]; other site 349106003171 substrate-cofactor binding pocket; other site 349106003172 catalytic residue [active] 349106003173 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349106003174 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 349106003175 putative NAD(P) binding site [chemical binding]; other site 349106003176 active site 349106003177 putative substrate binding site [chemical binding]; other site 349106003178 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 349106003179 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 349106003180 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 349106003181 active site 349106003182 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 349106003183 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 349106003184 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 349106003185 putative acyl-acceptor binding pocket; other site 349106003186 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 349106003187 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 349106003188 dimer interface [polypeptide binding]; other site 349106003189 anticodon binding site; other site 349106003190 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 349106003191 homodimer interface [polypeptide binding]; other site 349106003192 motif 1; other site 349106003193 active site 349106003194 motif 2; other site 349106003195 GAD domain; Region: GAD; pfam02938 349106003196 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 349106003197 active site 349106003198 motif 3; other site 349106003199 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 349106003200 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349106003201 tandem repeat interface [polypeptide binding]; other site 349106003202 oligomer interface [polypeptide binding]; other site 349106003203 active site residues [active] 349106003204 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106003205 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 349106003206 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 349106003207 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 349106003208 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 349106003209 ATP binding site [chemical binding]; other site 349106003210 putative Mg++ binding site [ion binding]; other site 349106003211 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 349106003212 nucleotide binding region [chemical binding]; other site 349106003213 ATP-binding site [chemical binding]; other site 349106003214 Helicase associated domain (HA2); Region: HA2; pfam04408 349106003215 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 349106003216 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 349106003217 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 349106003218 FAD binding pocket [chemical binding]; other site 349106003219 FAD binding motif [chemical binding]; other site 349106003220 phosphate binding motif [ion binding]; other site 349106003221 NAD binding pocket [chemical binding]; other site 349106003222 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106003223 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 349106003224 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349106003225 putative NAD(P) binding site [chemical binding]; other site 349106003226 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106003227 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 349106003228 TAP-like protein; Region: Abhydrolase_4; pfam08386 349106003229 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 349106003230 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 349106003231 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 349106003232 P loop; other site 349106003233 GTP binding site [chemical binding]; other site 349106003234 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 349106003235 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 349106003236 DNA binding site [nucleotide binding] 349106003237 active site 349106003238 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349106003239 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 349106003240 conserved cys residue [active] 349106003241 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349106003242 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106003243 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106003244 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106003245 active site 349106003246 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106003247 classical (c) SDRs; Region: SDR_c; cd05233 349106003248 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 349106003249 NAD(P) binding site [chemical binding]; other site 349106003250 active site 349106003251 short chain dehydrogenase; Provisional; Region: PRK07035 349106003252 classical (c) SDRs; Region: SDR_c; cd05233 349106003253 NAD(P) binding site [chemical binding]; other site 349106003254 active site 349106003255 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349106003256 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 349106003257 catalytic loop [active] 349106003258 iron binding site [ion binding]; other site 349106003259 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349106003260 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 349106003261 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 349106003262 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 349106003263 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 349106003264 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349106003265 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 349106003266 XdhC Rossmann domain; Region: XdhC_C; pfam13478 349106003267 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 349106003268 Ligand binding site; other site 349106003269 metal-binding site 349106003270 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 349106003271 Cytochrome P450; Region: p450; cl12078 349106003272 hypothetical protein; Validated; Region: PRK00110 349106003273 Ion transport protein; Region: Ion_trans; pfam00520 349106003274 Ion channel; Region: Ion_trans_2; pfam07885 349106003275 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 349106003276 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 349106003277 ABC1 family; Region: ABC1; cl17513 349106003278 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 349106003279 leucine export protein LeuE; Provisional; Region: PRK10958 349106003280 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 349106003281 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 349106003282 putative DNA binding site [nucleotide binding]; other site 349106003283 putative Zn2+ binding site [ion binding]; other site 349106003284 AsnC family; Region: AsnC_trans_reg; pfam01037 349106003285 2-isopropylmalate synthase; Validated; Region: PRK03739 349106003286 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 349106003287 active site 349106003288 catalytic residues [active] 349106003289 metal binding site [ion binding]; metal-binding site 349106003290 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 349106003291 hypothetical protein; Provisional; Region: PRK13795 349106003292 Uncharacterized conserved protein [Function unknown]; Region: COG1434 349106003293 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 349106003294 putative active site [active] 349106003295 putative protease; Provisional; Region: PRK15452 349106003296 Peptidase family U32; Region: Peptidase_U32; pfam01136 349106003297 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106003298 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349106003299 ligand binding site [chemical binding]; other site 349106003300 putative transposase OrfB; Reviewed; Region: PHA02517 349106003301 HTH-like domain; Region: HTH_21; pfam13276 349106003302 Integrase core domain; Region: rve; pfam00665 349106003303 Integrase core domain; Region: rve_3; pfam13683 349106003304 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003305 Transposase; Region: HTH_Tnp_1; pfam01527 349106003306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003307 Transposase; Region: HTH_Tnp_1; pfam01527 349106003308 putative transposase OrfB; Reviewed; Region: PHA02517 349106003309 HTH-like domain; Region: HTH_21; pfam13276 349106003310 Integrase core domain; Region: rve; pfam00665 349106003311 Integrase core domain; Region: rve_3; pfam13683 349106003312 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003313 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 349106003314 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003315 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003316 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 349106003317 Ca2+ binding site [ion binding]; other site 349106003318 Predicted membrane protein [Function unknown]; Region: COG2855 349106003319 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 349106003320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106003321 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 349106003322 putative dimerization interface [polypeptide binding]; other site 349106003323 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 349106003324 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 349106003325 substrate binding site [chemical binding]; other site 349106003326 catalytic Zn binding site [ion binding]; other site 349106003327 NAD binding site [chemical binding]; other site 349106003328 structural Zn binding site [ion binding]; other site 349106003329 dimer interface [polypeptide binding]; other site 349106003330 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003331 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106003332 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 349106003333 dimerization interface [polypeptide binding]; other site 349106003334 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349106003335 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106003336 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 349106003337 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 349106003338 metal binding site [ion binding]; metal-binding site 349106003339 dimer interface [polypeptide binding]; other site 349106003340 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349106003341 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 349106003342 Zn binding site [ion binding]; other site 349106003343 fumarylacetoacetase; Region: PLN02856 349106003344 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 349106003345 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 349106003346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106003348 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 349106003349 putative dimerization interface [polypeptide binding]; other site 349106003350 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 349106003351 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 349106003352 dimer interface [polypeptide binding]; other site 349106003353 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 349106003354 active site 349106003355 Fe binding site [ion binding]; other site 349106003356 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 349106003357 cofactor binding site; other site 349106003358 metal binding site [ion binding]; metal-binding site 349106003359 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_a; cd00913 349106003360 aromatic arch; other site 349106003361 DCoH dimer interaction site [polypeptide binding]; other site 349106003362 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 349106003363 DCoH tetramer interaction site [polypeptide binding]; other site 349106003364 substrate binding site [chemical binding]; other site 349106003365 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 349106003366 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 349106003367 active site 349106003368 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 349106003369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349106003370 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 349106003371 dimer interface [polypeptide binding]; other site 349106003372 phosphorylation site [posttranslational modification] 349106003373 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 349106003374 ATP binding site [chemical binding]; other site 349106003375 Mg2+ binding site [ion binding]; other site 349106003376 G-X-G motif; other site 349106003377 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349106003378 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 349106003379 active site 349106003380 phosphorylation site [posttranslational modification] 349106003381 intermolecular recognition site; other site 349106003382 dimerization interface [polypeptide binding]; other site 349106003383 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 349106003384 DNA binding site [nucleotide binding] 349106003385 putative metal dependent hydrolase; Provisional; Region: PRK11598 349106003386 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 349106003387 Sulfatase; Region: Sulfatase; pfam00884 349106003388 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106003389 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349106003390 ligand binding site [chemical binding]; other site 349106003391 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003392 Transposase; Region: HTH_Tnp_1; pfam01527 349106003393 putative transposase OrfB; Reviewed; Region: PHA02517 349106003394 HTH-like domain; Region: HTH_21; pfam13276 349106003395 Integrase core domain; Region: rve; pfam00665 349106003396 Integrase core domain; Region: rve_3; pfam13683 349106003397 HTH-like domain; Region: HTH_21; pfam13276 349106003398 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106003399 Integrase core domain; Region: rve; pfam00665 349106003400 Integrase core domain; Region: rve_2; pfam13333 349106003401 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003402 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106003403 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106003404 Transposase; Region: HTH_Tnp_1; pfam01527 349106003405 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003406 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349106003407 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349106003408 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349106003409 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349106003410 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106003411 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 349106003412 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 349106003413 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 349106003414 putative dimer interface [polypeptide binding]; other site 349106003415 N-terminal domain interface [polypeptide binding]; other site 349106003416 putative substrate binding pocket (H-site) [chemical binding]; other site 349106003417 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 349106003418 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 349106003419 Walker A/P-loop; other site 349106003420 ATP binding site [chemical binding]; other site 349106003421 Q-loop/lid; other site 349106003422 ABC transporter signature motif; other site 349106003423 Walker B; other site 349106003424 D-loop; other site 349106003425 H-loop/switch region; other site 349106003426 TOBE domain; Region: TOBE_2; pfam08402 349106003427 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 349106003428 dimer interface [polypeptide binding]; other site 349106003429 conserved gate region; other site 349106003430 putative PBP binding loops; other site 349106003431 ABC-ATPase subunit interface; other site 349106003432 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349106003433 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 349106003434 dimer interface [polypeptide binding]; other site 349106003435 ABC-ATPase subunit interface; other site 349106003436 putative PBP binding loops; other site 349106003437 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 349106003438 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 349106003439 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 349106003440 exodeoxyribonuclease X; Provisional; Region: PRK07983 349106003441 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349106003442 active site 349106003443 catalytic site [active] 349106003444 substrate binding site [chemical binding]; other site 349106003445 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 349106003446 SnoaL-like domain; Region: SnoaL_2; pfam12680 349106003447 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 349106003448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106003449 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106003450 Probable transposase; Region: OrfB_IS605; pfam01385 349106003451 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106003452 putative alcohol dehydrogenase; Provisional; Region: PRK09860 349106003453 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 349106003454 active site 349106003455 metal binding site [ion binding]; metal-binding site 349106003456 PAP2_like_2 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_2; cd03392 349106003457 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 349106003458 active site 349106003459 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 349106003460 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 349106003461 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 349106003462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003463 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106003464 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106003465 Probable transposase; Region: OrfB_IS605; pfam01385 349106003466 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106003467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106003469 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 349106003470 putative effector binding pocket; other site 349106003471 dimerization interface [polypeptide binding]; other site 349106003472 D-lactate dehydrogenase; Provisional; Region: PRK11183 349106003473 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 349106003474 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 349106003475 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349106003476 acyl-activating enzyme (AAE) consensus motif; other site 349106003477 AMP binding site [chemical binding]; other site 349106003478 active site 349106003479 CoA binding site [chemical binding]; other site 349106003480 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 349106003481 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 349106003482 substrate binding site [chemical binding]; other site 349106003483 oxyanion hole (OAH) forming residues; other site 349106003484 trimer interface [polypeptide binding]; other site 349106003485 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 349106003486 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 349106003487 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106003488 catalytic residue [active] 349106003489 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 349106003490 FAD binding domain; Region: FAD_binding_4; pfam01565 349106003491 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 349106003492 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106003493 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349106003494 ligand binding site [chemical binding]; other site 349106003495 Calx-beta domain; Region: Calx-beta; cl02522 349106003496 Calx-beta domain; Region: Calx-beta; cl02522 349106003497 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003498 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349106003499 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349106003500 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349106003501 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106003502 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349106003503 Transposase; Region: HTH_Tnp_1; pfam01527 349106003504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003505 HTH-like domain; Region: HTH_21; pfam13276 349106003506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106003507 Integrase core domain; Region: rve; pfam00665 349106003508 Integrase core domain; Region: rve_2; pfam13333 349106003509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003510 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106003511 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106003512 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106003513 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 349106003514 putative C-terminal domain interface [polypeptide binding]; other site 349106003515 putative GSH binding site (G-site) [chemical binding]; other site 349106003516 putative dimer interface [polypeptide binding]; other site 349106003517 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106003518 N-terminal domain interface [polypeptide binding]; other site 349106003519 dimer interface [polypeptide binding]; other site 349106003520 substrate binding pocket (H-site) [chemical binding]; other site 349106003521 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 349106003522 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 349106003523 potential catalytic triad [active] 349106003524 conserved cys residue [active] 349106003525 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 349106003526 Prostaglandin dehydrogenases; Region: PGDH; cd05288 349106003527 NAD(P) binding site [chemical binding]; other site 349106003528 substrate binding site [chemical binding]; other site 349106003529 dimer interface [polypeptide binding]; other site 349106003530 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 349106003531 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 349106003532 dimer interface [polypeptide binding]; other site 349106003533 active site 349106003534 metal binding site [ion binding]; metal-binding site 349106003535 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106003536 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106003537 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 349106003538 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106003539 AAA domain; Region: AAA_23; pfam13476 349106003540 Walker A/P-loop; other site 349106003541 ATP binding site [chemical binding]; other site 349106003542 Q-loop/lid; other site 349106003543 exonuclease subunit SbcC; Provisional; Region: PRK10246 349106003544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106003545 ABC transporter signature motif; other site 349106003546 Walker B; other site 349106003547 D-loop; other site 349106003548 H-loop/switch region; other site 349106003549 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 349106003550 active site 349106003551 metal binding site [ion binding]; metal-binding site 349106003552 DNA binding site [nucleotide binding] 349106003553 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 349106003554 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 349106003555 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 349106003556 S-adenosylmethionine binding site [chemical binding]; other site 349106003557 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349106003558 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106003559 Walker A/P-loop; other site 349106003560 ATP binding site [chemical binding]; other site 349106003561 Q-loop/lid; other site 349106003562 ABC transporter signature motif; other site 349106003563 Walker B; other site 349106003564 D-loop; other site 349106003565 H-loop/switch region; other site 349106003566 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 349106003567 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349106003568 intersubunit interface [polypeptide binding]; other site 349106003569 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349106003570 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349106003571 dimer interface [polypeptide binding]; other site 349106003572 ABC-ATPase subunit interface; other site 349106003573 putative PBP binding regions; other site 349106003574 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349106003575 ABC-ATPase subunit interface; other site 349106003576 dimer interface [polypeptide binding]; other site 349106003577 putative PBP binding regions; other site 349106003578 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 349106003579 putative substrate translocation pore; other site 349106003580 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 349106003581 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 349106003582 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 349106003583 N-terminal plug; other site 349106003584 ligand-binding site [chemical binding]; other site 349106003585 siroheme synthase; Provisional; Region: cysG; PRK10637 349106003586 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 349106003587 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 349106003588 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 349106003589 active site 349106003590 SAM binding site [chemical binding]; other site 349106003591 homodimer interface [polypeptide binding]; other site 349106003592 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 349106003593 Active Sites [active] 349106003594 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 349106003595 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 349106003596 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349106003597 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349106003598 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 349106003599 ATP-sulfurylase; Region: ATPS; cd00517 349106003600 active site 349106003601 HXXH motif; other site 349106003602 flexible loop; other site 349106003603 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 349106003604 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 349106003605 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 349106003606 putative active site [active] 349106003607 catalytic site [active] 349106003608 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 349106003609 putative active site [active] 349106003610 catalytic site [active] 349106003611 Protein of unknown function DUF45; Region: DUF45; pfam01863 349106003612 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 349106003613 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 349106003614 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 349106003615 ATP binding site [chemical binding]; other site 349106003616 putative Mg++ binding site [ion binding]; other site 349106003617 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; cd00569 349106003618 DNA-binding interface [nucleotide binding]; DNA binding site 349106003619 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003620 Transposase; Region: HTH_Tnp_1; pfam01527 349106003621 putative transposase OrfB; Reviewed; Region: PHA02517 349106003622 HTH-like domain; Region: HTH_21; pfam13276 349106003623 Integrase core domain; Region: rve; pfam00665 349106003624 Integrase core domain; Region: rve_3; pfam13683 349106003625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 349106003626 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349106003627 active site 349106003628 catalytic residues [active] 349106003629 DNA binding site [nucleotide binding] 349106003630 Int/Topo IB signature motif; other site 349106003631 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 349106003632 active site 349106003633 catalytic residues [active] 349106003634 DNA binding site [nucleotide binding] 349106003635 Int/Topo IB signature motif; other site 349106003636 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 349106003637 HsdM N-terminal domain; Region: HsdM_N; pfam12161 349106003638 Methyltransferase domain; Region: Methyltransf_26; pfam13659 349106003639 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 349106003640 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 349106003641 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349106003642 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 349106003643 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349106003644 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349106003645 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 349106003646 dimer interface [polypeptide binding]; other site 349106003647 conserved gate region; other site 349106003648 putative PBP binding loops; other site 349106003649 ABC-ATPase subunit interface; other site 349106003650 sulfate transport protein; Provisional; Region: cysT; CHL00187 349106003651 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 349106003652 dimer interface [polypeptide binding]; other site 349106003653 conserved gate region; other site 349106003654 putative PBP binding loops; other site 349106003655 ABC-ATPase subunit interface; other site 349106003656 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 349106003657 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 349106003658 Walker A/P-loop; other site 349106003659 ATP binding site [chemical binding]; other site 349106003660 Q-loop/lid; other site 349106003661 ABC transporter signature motif; other site 349106003662 Walker B; other site 349106003663 D-loop; other site 349106003664 H-loop/switch region; other site 349106003665 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 349106003666 Ligand Binding Site [chemical binding]; other site 349106003667 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 349106003668 Ligand Binding Site [chemical binding]; other site 349106003669 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 349106003670 dimerization interface [polypeptide binding]; other site 349106003671 putative DNA binding site [nucleotide binding]; other site 349106003672 putative Zn2+ binding site [ion binding]; other site 349106003673 arsenical pump membrane protein; Provisional; Region: PRK15445 349106003674 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 349106003675 transmembrane helices; other site 349106003676 Low molecular weight phosphatase family; Region: LMWPc; cl00105 349106003677 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349106003678 active site 349106003679 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 349106003680 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349106003681 MgtC family; Region: MgtC; pfam02308 349106003682 glutamate dehydrogenase; Provisional; Region: PRK09414 349106003683 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 349106003684 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 349106003685 NAD(P) binding pocket [chemical binding]; other site 349106003686 putative transporter; Provisional; Region: PRK10504 349106003687 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 349106003688 putative substrate translocation pore; other site 349106003689 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 349106003690 putative S-transferase; Provisional; Region: PRK11752 349106003691 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 349106003692 C-terminal domain interface [polypeptide binding]; other site 349106003693 GSH binding site (G-site) [chemical binding]; other site 349106003694 dimer interface [polypeptide binding]; other site 349106003695 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106003696 N-terminal domain interface [polypeptide binding]; other site 349106003697 dimer interface [polypeptide binding]; other site 349106003698 substrate binding pocket (H-site) [chemical binding]; other site 349106003699 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 349106003700 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 349106003701 ATP binding site [chemical binding]; other site 349106003702 Mg++ binding site [ion binding]; other site 349106003703 motif III; other site 349106003704 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 349106003705 nucleotide binding region [chemical binding]; other site 349106003706 ATP-binding site [chemical binding]; other site 349106003707 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 349106003708 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 349106003709 catalytic residues [active] 349106003710 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 349106003711 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 349106003712 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 349106003713 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106003714 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 349106003715 substrate binding pocket [chemical binding]; other site 349106003716 membrane-bound complex binding site; other site 349106003717 hinge residues; other site 349106003718 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106003719 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 349106003720 dimer interface [polypeptide binding]; other site 349106003721 conserved gate region; other site 349106003722 putative PBP binding loops; other site 349106003723 ABC-ATPase subunit interface; other site 349106003724 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106003725 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 349106003726 Walker A/P-loop; other site 349106003727 ATP binding site [chemical binding]; other site 349106003728 Q-loop/lid; other site 349106003729 ABC transporter signature motif; other site 349106003730 Walker B; other site 349106003731 D-loop; other site 349106003732 H-loop/switch region; other site 349106003733 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106003734 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 349106003735 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 349106003736 glutamine binding [chemical binding]; other site 349106003737 catalytic triad [active] 349106003738 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 349106003739 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 349106003740 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 349106003741 Trp repressor protein; Region: Trp_repressor; cl17266 349106003742 ornithine decarboxylase; Provisional; Region: PRK13578 349106003743 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 349106003744 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 349106003745 homodimer interface [polypeptide binding]; other site 349106003746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106003747 catalytic residue [active] 349106003748 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 349106003749 Protein of unknown function (DUF819); Region: DUF819; cl02317 349106003750 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 349106003751 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 349106003752 AAA domain; Region: AAA_26; pfam13500 349106003753 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 349106003754 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 349106003755 AAA domain; Region: AAA_26; pfam13500 349106003756 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 349106003757 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 349106003758 inhibitor-cofactor binding pocket; inhibition site 349106003759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106003760 catalytic residue [active] 349106003761 putative transposase OrfB; Reviewed; Region: PHA02517 349106003762 HTH-like domain; Region: HTH_21; pfam13276 349106003763 Integrase core domain; Region: rve; pfam00665 349106003764 Integrase core domain; Region: rve_3; cl15866 349106003765 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003766 Transposase; Region: HTH_Tnp_1; pfam01527 349106003767 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003768 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003769 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003770 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003771 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003772 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003773 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 349106003774 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 349106003775 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106003776 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 349106003777 TAP-like protein; Region: Abhydrolase_4; pfam08386 349106003778 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349106003779 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 349106003780 putative active site [active] 349106003781 putative FMN binding site [chemical binding]; other site 349106003782 putative substrate binding site [chemical binding]; other site 349106003783 putative catalytic residue [active] 349106003784 Predicted transcriptional regulators [Transcription]; Region: COG1733 349106003785 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 349106003786 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 349106003787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106003788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106003789 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 349106003790 Fasciclin domain; Region: Fasciclin; pfam02469 349106003791 short chain dehydrogenase; Provisional; Region: PRK06101 349106003792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106003793 NAD(P) binding site [chemical binding]; other site 349106003794 active site 349106003795 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 349106003796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 349106003797 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 349106003798 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 349106003799 S-adenosylmethionine binding site [chemical binding]; other site 349106003800 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 349106003801 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 349106003802 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 349106003803 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349106003804 active site 349106003805 catalytic tetrad [active] 349106003806 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106003808 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 349106003809 putative effector binding pocket; other site 349106003810 dimerization interface [polypeptide binding]; other site 349106003811 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 349106003812 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 349106003813 acyl-activating enzyme (AAE) consensus motif; other site 349106003814 putative AMP binding site [chemical binding]; other site 349106003815 putative active site [active] 349106003816 putative CoA binding site [chemical binding]; other site 349106003817 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 349106003818 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349106003819 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 349106003820 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 349106003821 substrate binding site [chemical binding]; other site 349106003822 oxyanion hole (OAH) forming residues; other site 349106003823 trimer interface [polypeptide binding]; other site 349106003824 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349106003825 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349106003826 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 349106003827 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 349106003828 dimer interface [polypeptide binding]; other site 349106003829 active site 349106003830 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349106003831 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106003832 active site 349106003833 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106003834 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106003835 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 349106003836 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 349106003837 active site 349106003838 Int/Topo IB signature motif; other site 349106003839 Protein of unknown function (DUF779); Region: DUF779; pfam05610 349106003840 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 349106003841 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106003842 NAD(P) binding site [chemical binding]; other site 349106003843 catalytic residues [active] 349106003844 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 349106003845 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 349106003846 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003847 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106003848 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 349106003849 dimerization interface [polypeptide binding]; other site 349106003850 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 349106003851 tetramer interface [polypeptide binding]; other site 349106003852 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 349106003853 active site 349106003854 Mg2+/Mn2+ binding site [ion binding]; other site 349106003855 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 349106003856 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 349106003857 dimer interface [polypeptide binding]; other site 349106003858 active site 349106003859 citrylCoA binding site [chemical binding]; other site 349106003860 oxalacetate/citrate binding site [chemical binding]; other site 349106003861 coenzyme A binding site [chemical binding]; other site 349106003862 catalytic triad [active] 349106003863 aconitate hydratase; Validated; Region: PRK09277 349106003864 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 349106003865 substrate binding site [chemical binding]; other site 349106003866 ligand binding site [chemical binding]; other site 349106003867 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 349106003868 substrate binding site [chemical binding]; other site 349106003869 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 349106003870 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349106003871 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349106003872 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106003873 Walker A/P-loop; other site 349106003874 ATP binding site [chemical binding]; other site 349106003875 Q-loop/lid; other site 349106003876 ABC transporter signature motif; other site 349106003877 Walker B; other site 349106003878 D-loop; other site 349106003879 H-loop/switch region; other site 349106003880 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106003881 Coenzyme A binding pocket [chemical binding]; other site 349106003882 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 349106003883 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 349106003884 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 349106003885 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 349106003886 G1 box; other site 349106003887 GTP/Mg2+ binding site [chemical binding]; other site 349106003888 G2 box; other site 349106003889 Switch I region; other site 349106003890 G3 box; other site 349106003891 Switch II region; other site 349106003892 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 349106003893 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 349106003894 DTAP/Switch II; other site 349106003895 Switch I; other site 349106003896 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 349106003897 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 349106003898 Carbon starvation protein CstA; Region: CstA; pfam02554 349106003899 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 349106003900 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106003901 active site 349106003902 AAA domain; Region: AAA_30; pfam13604 349106003903 Family description; Region: UvrD_C_2; pfam13538 349106003904 Part of AAA domain; Region: AAA_19; pfam13245 349106003905 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 349106003906 Family description; Region: UvrD_C_2; pfam13538 349106003907 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 349106003908 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 349106003909 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 349106003910 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349106003911 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 349106003912 probable active site [active] 349106003913 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 349106003914 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 349106003915 integrase; Provisional; Region: PRK09692 349106003916 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 349106003917 active site 349106003918 Int/Topo IB signature motif; other site 349106003919 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 349106003920 putative heme binding pocket [chemical binding]; other site 349106003921 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 349106003922 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349106003923 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 349106003924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003925 Transposase; Region: HTH_Tnp_1; pfam01527 349106003926 putative transposase OrfB; Reviewed; Region: PHA02517 349106003927 HTH-like domain; Region: HTH_21; pfam13276 349106003928 Integrase core domain; Region: rve; pfam00665 349106003929 Integrase core domain; Region: rve_3; cl15866 349106003930 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 349106003931 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 349106003932 putative active site [active] 349106003933 Zn binding site [ion binding]; other site 349106003934 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 349106003935 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 349106003936 putative active site [active] 349106003937 putative PHP Thumb interface [polypeptide binding]; other site 349106003938 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 349106003939 generic binding surface I; other site 349106003940 generic binding surface II; other site 349106003941 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 349106003942 Isochorismatase family; Region: Isochorismatase; pfam00857 349106003943 catalytic triad [active] 349106003944 dimer interface [polypeptide binding]; other site 349106003945 conserved cis-peptide bond; other site 349106003946 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 349106003947 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 349106003948 BCCT family transporter; Region: BCCT; pfam02028 349106003949 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 349106003950 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 349106003951 active site 349106003952 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 349106003953 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106003954 NAD(P) binding site [chemical binding]; other site 349106003955 catalytic residues [active] 349106003956 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 349106003957 homotrimer interaction site [polypeptide binding]; other site 349106003958 putative active site [active] 349106003959 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106003961 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 349106003962 putative dimerization interface [polypeptide binding]; other site 349106003963 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 349106003964 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 349106003965 serine O-acetyltransferase; Region: cysE; TIGR01172 349106003966 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 349106003967 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 349106003968 trimer interface [polypeptide binding]; other site 349106003969 active site 349106003970 substrate binding site [chemical binding]; other site 349106003971 CoA binding site [chemical binding]; other site 349106003972 Protein of unknown function (DUF3677); Region: DUF3677; pfam12432 349106003973 Dihydroneopterin aldolase; Region: FolB; pfam02152 349106003974 active site 349106003975 rarD protein; Region: rarD; TIGR00688 349106003976 EamA-like transporter family; Region: EamA; pfam00892 349106003977 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 349106003978 prephenate dehydrogenase; Validated; Region: PRK08507 349106003979 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 349106003980 hinge; other site 349106003981 active site 349106003982 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 349106003983 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 349106003984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106003985 homodimer interface [polypeptide binding]; other site 349106003986 catalytic residue [active] 349106003987 Chorismate mutase type II; Region: CM_2; cl00693 349106003988 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 349106003989 Prephenate dehydratase; Region: PDT; pfam00800 349106003990 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 349106003991 putative L-Phe binding site [chemical binding]; other site 349106003992 transaldolase-like protein; Provisional; Region: PTZ00411 349106003993 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 349106003994 active site 349106003995 dimer interface [polypeptide binding]; other site 349106003996 catalytic residue [active] 349106003997 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106003998 active site 349106003999 Rubredoxin [Energy production and conversion]; Region: COG1773 349106004000 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 349106004001 iron binding site [ion binding]; other site 349106004002 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106004003 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 349106004004 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106004005 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 349106004006 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 349106004007 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 349106004008 heterotetramer interface [polypeptide binding]; other site 349106004009 active site pocket [active] 349106004010 cleavage site 349106004011 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 349106004012 putative catalytic site [active] 349106004013 putative phosphate binding site [ion binding]; other site 349106004014 active site 349106004015 metal binding site A [ion binding]; metal-binding site 349106004016 DNA binding site [nucleotide binding] 349106004017 putative AP binding site [nucleotide binding]; other site 349106004018 putative metal binding site B [ion binding]; other site 349106004019 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 349106004020 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 349106004021 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 349106004022 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 349106004023 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 349106004024 active site 349106004025 substrate binding site [chemical binding]; other site 349106004026 metal binding site [ion binding]; metal-binding site 349106004027 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 349106004028 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 349106004029 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 349106004030 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 349106004031 active site 349106004032 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349106004033 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106004034 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 349106004035 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349106004036 active site 349106004037 HIGH motif; other site 349106004038 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349106004039 KMSKS motif; other site 349106004040 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 349106004041 tRNA binding surface [nucleotide binding]; other site 349106004042 anticodon binding site; other site 349106004043 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 349106004044 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 349106004045 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 349106004046 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 349106004047 active site 349106004048 catalytic site [active] 349106004049 metal binding site [ion binding]; metal-binding site 349106004050 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 349106004051 Fatty acid desaturase; Region: FA_desaturase; pfam00487 349106004052 Di-iron ligands [ion binding]; other site 349106004053 Uncharacterized conserved protein [Function unknown]; Region: COG0397 349106004054 hypothetical protein; Validated; Region: PRK00029 349106004055 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 349106004056 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349106004057 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349106004058 putative NAD(P) binding site [chemical binding]; other site 349106004059 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 349106004060 Sensors of blue-light using FAD; Region: BLUF; smart01034 349106004061 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 349106004062 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 349106004063 active site 349106004064 NTP binding site [chemical binding]; other site 349106004065 metal binding triad [ion binding]; metal-binding site 349106004066 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349106004067 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 349106004068 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 349106004069 active site 349106004070 Int/Topo IB signature motif; other site 349106004071 DNA binding site [nucleotide binding] 349106004072 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 349106004073 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 349106004074 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 349106004075 Uncharacterized conserved protein [Function unknown]; Region: COG1315 349106004076 Family description; Region: DsbD_2; pfam13386 349106004077 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 349106004078 MAEBL; Provisional; Region: PTZ00121 349106004079 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 349106004080 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 349106004081 Terminase-like family; Region: Terminase_6; pfam03237 349106004082 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349106004083 catalytic residues [active] 349106004084 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004085 Transposase; Region: HTH_Tnp_1; pfam01527 349106004086 putative transposase OrfB; Reviewed; Region: PHA02517 349106004087 HTH-like domain; Region: HTH_21; pfam13276 349106004088 Integrase core domain; Region: rve; pfam00665 349106004089 Integrase core domain; Region: rve_3; pfam13683 349106004090 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 349106004091 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349106004092 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 349106004093 LrgA family; Region: LrgA; pfam03788 349106004094 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106004095 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106004096 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 349106004097 putative dimerization interface [polypeptide binding]; other site 349106004098 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 349106004099 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 349106004100 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 349106004101 Restriction endonuclease; Region: Mrr_cat; pfam04471 349106004102 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349106004103 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 349106004104 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349106004105 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 349106004106 HsdM N-terminal domain; Region: HsdM_N; pfam12161 349106004107 Methyltransferase domain; Region: Methyltransf_26; pfam13659 349106004108 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 349106004109 non-specific DNA binding site [nucleotide binding]; other site 349106004110 salt bridge; other site 349106004111 sequence-specific DNA binding site [nucleotide binding]; other site 349106004112 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 349106004113 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 349106004114 putative DNA binding site [nucleotide binding]; other site 349106004115 putative Zn2+ binding site [ion binding]; other site 349106004116 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; cl17257 349106004117 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 349106004118 non-specific DNA binding site [nucleotide binding]; other site 349106004119 salt bridge; other site 349106004120 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 349106004121 sequence-specific DNA binding site [nucleotide binding]; other site 349106004122 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 349106004123 Catalytic site [active] 349106004124 hypothetical protein; Provisional; Region: PRK05208 349106004125 Predicted permease [General function prediction only]; Region: COG2056 349106004126 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 349106004127 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 349106004128 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349106004129 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 349106004130 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u5; cd11542 349106004131 metal binding site [ion binding]; metal-binding site 349106004132 Integrase core domain; Region: rve; pfam00665 349106004133 5-methylcytosine-specific restriction enzyme subunit McrC; Provisional; Region: PRK09736 349106004134 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 349106004135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004136 Transposase; Region: HTH_Tnp_1; pfam01527 349106004137 putative transposase OrfB; Reviewed; Region: PHA02517 349106004138 HTH-like domain; Region: HTH_21; pfam13276 349106004139 Integrase core domain; Region: rve; pfam00665 349106004140 Integrase core domain; Region: rve_3; pfam13683 349106004141 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004142 Transposase; Region: HTH_Tnp_1; pfam01527 349106004143 Integrase core domain; Region: rve; pfam00665 349106004144 Integrase core domain; Region: rve_3; pfam13683 349106004145 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 349106004146 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349106004147 Walker A motif; other site 349106004148 ATP binding site [chemical binding]; other site 349106004149 Walker B motif; other site 349106004150 arginine finger; other site 349106004151 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 349106004152 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 349106004153 HTH-like domain; Region: HTH_21; pfam13276 349106004154 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106004155 Integrase core domain; Region: rve; pfam00665 349106004156 Integrase core domain; Region: rve_2; pfam13333 349106004157 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004158 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106004159 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106004160 Transposase; Region: HTH_Tnp_1; pfam01527 349106004161 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004162 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349106004163 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349106004164 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349106004165 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349106004166 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106004167 Calx-beta domain; Region: Calx-beta; pfam03160 349106004168 Calx-beta domain; Region: Calx-beta; pfam03160 349106004169 Calx-beta domain; Region: Calx-beta; pfam03160 349106004170 Calx-beta domain; Region: Calx-beta; pfam03160 349106004171 Calx-beta domain; Region: Calx-beta; pfam03160 349106004172 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106004173 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 349106004174 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 349106004175 catalytic triad [active] 349106004176 dimer interface [polypeptide binding]; other site 349106004177 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 349106004178 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 349106004179 generic binding surface II; other site 349106004180 generic binding surface I; other site 349106004181 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 349106004182 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 349106004183 fructuronate transporter; Provisional; Region: PRK10034; cl15264 349106004184 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 349106004185 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 349106004186 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 349106004187 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 349106004188 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 349106004189 catalytic residues [active] 349106004190 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 349106004191 methionine sulfoxide reductase B; Provisional; Region: PRK00222 349106004192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106004193 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106004194 Walker A/P-loop; other site 349106004195 ATP binding site [chemical binding]; other site 349106004196 Q-loop/lid; other site 349106004197 ABC transporter signature motif; other site 349106004198 Walker B; other site 349106004199 D-loop; other site 349106004200 H-loop/switch region; other site 349106004201 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 349106004202 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 349106004203 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 349106004204 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 349106004205 dimer interface [polypeptide binding]; other site 349106004206 conserved gate region; other site 349106004207 ABC-ATPase subunit interface; other site 349106004208 hypothetical protein; Provisional; Region: PRK09256 349106004209 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 349106004210 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 349106004211 NAD(P) binding site [chemical binding]; other site 349106004212 catalytic residues [active] 349106004213 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349106004214 classical (c) SDRs; Region: SDR_c; cd05233 349106004215 NAD(P) binding site [chemical binding]; other site 349106004216 active site 349106004217 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 349106004218 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 349106004219 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 349106004220 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 349106004221 oligomer interface [polypeptide binding]; other site 349106004222 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349106004223 Beta-lactamase; Region: Beta-lactamase; pfam00144 349106004224 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 349106004225 Putative phosphatase (DUF442); Region: DUF442; cl17385 349106004226 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 349106004227 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 349106004228 active site 2 [active] 349106004229 active site 1 [active] 349106004230 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 349106004231 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106004232 NAD(P) binding site [chemical binding]; other site 349106004233 active site 349106004234 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 349106004235 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 349106004236 dimer interface [polypeptide binding]; other site 349106004237 active site 349106004238 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 349106004239 DNA polymerase III subunit delta'; Validated; Region: PRK08485 349106004240 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 349106004241 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106004242 Probable transposase; Region: OrfB_IS605; pfam01385 349106004243 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106004244 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 349106004245 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 349106004246 Ligand binding site; other site 349106004247 oligomer interface; other site 349106004248 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 349106004249 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 349106004250 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 349106004251 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349106004252 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 349106004253 Walker A/P-loop; other site 349106004254 ATP binding site [chemical binding]; other site 349106004255 Q-loop/lid; other site 349106004256 ABC transporter signature motif; other site 349106004257 Walker B; other site 349106004258 D-loop; other site 349106004259 H-loop/switch region; other site 349106004260 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 349106004261 ParB-like nuclease domain; Region: ParB; smart00470 349106004262 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349106004263 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 349106004264 P-loop; other site 349106004265 Magnesium ion binding site [ion binding]; other site 349106004266 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 349106004267 Magnesium ion binding site [ion binding]; other site 349106004268 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 349106004269 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 349106004270 S-adenosylmethionine binding site [chemical binding]; other site 349106004271 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 349106004272 WYL domain; Region: WYL; pfam13280 349106004273 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 349106004274 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106004275 putative metal binding site [ion binding]; other site 349106004276 Ion transport protein; Region: Ion_trans; pfam00520 349106004277 Ion channel; Region: Ion_trans_2; pfam07885 349106004278 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 349106004279 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 349106004280 E3 interaction surface; other site 349106004281 lipoyl attachment site [posttranslational modification]; other site 349106004282 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 349106004283 E3 interaction surface; other site 349106004284 lipoyl attachment site [posttranslational modification]; other site 349106004285 e3 binding domain; Region: E3_binding; pfam02817 349106004286 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 349106004287 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 349106004288 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 349106004289 dimer interface [polypeptide binding]; other site 349106004290 TPP-binding site [chemical binding]; other site 349106004291 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 349106004292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 349106004293 Predicted ATPase [General function prediction only]; Region: COG1485 349106004294 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 349106004295 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 349106004296 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 349106004297 dimer interface [polypeptide binding]; other site 349106004298 conserved gate region; other site 349106004299 putative PBP binding loops; other site 349106004300 ABC-ATPase subunit interface; other site 349106004301 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 349106004302 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 349106004303 dimer interface [polypeptide binding]; other site 349106004304 conserved gate region; other site 349106004305 ABC-ATPase subunit interface; other site 349106004306 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 349106004307 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349106004308 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 349106004309 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 349106004310 homodimer interface [polypeptide binding]; other site 349106004311 substrate-cofactor binding pocket; other site 349106004312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004313 catalytic residue [active] 349106004314 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 349106004315 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 349106004316 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 349106004317 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106004318 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 349106004319 Walker A/P-loop; other site 349106004320 ATP binding site [chemical binding]; other site 349106004321 Q-loop/lid; other site 349106004322 ABC transporter signature motif; other site 349106004323 Walker B; other site 349106004324 D-loop; other site 349106004325 H-loop/switch region; other site 349106004326 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 349106004327 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 349106004328 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 349106004329 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 349106004330 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 349106004331 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 349106004332 ABC1 family; Region: ABC1; cl17513 349106004333 Putative methyltransferase; Region: Methyltransf_4; cl17290 349106004334 Domain of unknown function (DUF329); Region: DUF329; pfam03884 349106004335 acetylornithine aminotransferase; Provisional; Region: PRK02627 349106004336 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 349106004337 inhibitor-cofactor binding pocket; inhibition site 349106004338 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004339 catalytic residue [active] 349106004340 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 349106004341 RuvA N terminal domain; Region: RuvA_N; pfam01330 349106004342 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 349106004343 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 349106004344 Phosphoglycerate kinase; Region: PGK; pfam00162 349106004345 substrate binding site [chemical binding]; other site 349106004346 hinge regions; other site 349106004347 ADP binding site [chemical binding]; other site 349106004348 catalytic site [active] 349106004349 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 349106004350 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349106004351 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349106004352 response regulator; Provisional; Region: PRK09483 349106004353 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 349106004354 active site 349106004355 phosphorylation site [posttranslational modification] 349106004356 intermolecular recognition site; other site 349106004357 dimerization interface [polypeptide binding]; other site 349106004358 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 349106004359 DNA binding residues [nucleotide binding] 349106004360 dimerization interface [polypeptide binding]; other site 349106004361 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 349106004362 C-terminal peptidase (prc); Region: prc; TIGR00225 349106004363 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 349106004364 protein binding site [polypeptide binding]; other site 349106004365 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 349106004366 Catalytic dyad [active] 349106004367 phosphoglyceromutase; Provisional; Region: PRK05434 349106004368 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 349106004369 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 349106004370 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 349106004371 active site 349106004372 putative DNA-binding cleft [nucleotide binding]; other site 349106004373 dimer interface [polypeptide binding]; other site 349106004374 META domain; Region: META; pfam03724 349106004375 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 349106004376 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106004377 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106004378 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106004379 N-terminal domain interface [polypeptide binding]; other site 349106004380 dimer interface [polypeptide binding]; other site 349106004381 substrate binding pocket (H-site) [chemical binding]; other site 349106004382 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 349106004383 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 349106004384 dimer interface [polypeptide binding]; other site 349106004385 decamer (pentamer of dimers) interface [polypeptide binding]; other site 349106004386 catalytic triad [active] 349106004387 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 349106004388 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 349106004389 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 349106004390 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349106004391 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349106004392 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 349106004393 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 349106004394 dimerization interface [polypeptide binding]; other site 349106004395 putative ATP binding site [chemical binding]; other site 349106004396 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 349106004397 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 349106004398 active site 349106004399 substrate binding site [chemical binding]; other site 349106004400 cosubstrate binding site; other site 349106004401 catalytic site [active] 349106004402 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 349106004403 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349106004404 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 349106004405 Walker A/P-loop; other site 349106004406 ATP binding site [chemical binding]; other site 349106004407 Q-loop/lid; other site 349106004408 ABC transporter signature motif; other site 349106004409 Walker B; other site 349106004410 D-loop; other site 349106004411 H-loop/switch region; other site 349106004412 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; cl17432 349106004413 NMT1/THI5 like; Region: NMT1; pfam09084 349106004414 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 349106004415 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 349106004416 ABC-ATPase subunit interface; other site 349106004417 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 349106004418 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 349106004419 NAD(P) binding site [chemical binding]; other site 349106004420 catalytic residues [active] 349106004421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106004422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106004423 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 349106004424 substrate binding pocket [chemical binding]; other site 349106004425 dimerization interface [polypeptide binding]; other site 349106004426 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 349106004427 tetramer interface [polypeptide binding]; other site 349106004428 active site 349106004429 Mg2+/Mn2+ binding site [ion binding]; other site 349106004430 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 349106004431 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 349106004432 putative active site [active] 349106004433 putative metal binding residues [ion binding]; other site 349106004434 signature motif; other site 349106004435 putative triphosphate binding site [ion binding]; other site 349106004436 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 349106004437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349106004438 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349106004439 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 349106004440 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 349106004441 Walker A motif; other site 349106004442 ATP binding site [chemical binding]; other site 349106004443 Walker B motif; other site 349106004444 arginine finger; other site 349106004445 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 349106004446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106004447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106004448 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 349106004449 putative effector binding pocket; other site 349106004450 dimerization interface [polypeptide binding]; other site 349106004451 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 349106004452 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 349106004453 Walker A motif; other site 349106004454 ATP binding site [chemical binding]; other site 349106004455 Walker B motif; other site 349106004456 arginine finger; other site 349106004457 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 349106004458 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 349106004459 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 349106004460 dimer interface [polypeptide binding]; other site 349106004461 putative anticodon binding site; other site 349106004462 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 349106004463 motif 1; other site 349106004464 active site 349106004465 motif 2; other site 349106004466 motif 3; other site 349106004467 peptide chain release factor 1; Validated; Region: prfA; PRK00591 349106004468 This domain is found in peptide chain release factors; Region: PCRF; smart00937 349106004469 RF-1 domain; Region: RF-1; pfam00472 349106004470 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 349106004471 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 349106004472 dimer interface [polypeptide binding]; other site 349106004473 active site 349106004474 CoA binding pocket [chemical binding]; other site 349106004475 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 349106004476 AAA domain; Region: AAA_28; pfam13521 349106004477 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 349106004478 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 349106004479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004480 catalytic residue [active] 349106004481 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 349106004482 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 349106004483 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 349106004484 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 349106004485 active site 349106004486 substrate binding site [chemical binding]; other site 349106004487 FMN binding site [chemical binding]; other site 349106004488 putative catalytic residues [active] 349106004489 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 349106004490 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 349106004491 trimer interface [polypeptide binding]; other site 349106004492 eyelet of channel; other site 349106004493 Homeodomain-like domain; Region: HTH_23; pfam13384 349106004494 Winged helix-turn helix; Region: HTH_29; pfam13551 349106004495 Winged helix-turn helix; Region: HTH_33; pfam13592 349106004496 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106004497 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106004498 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 349106004499 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349106004500 putative substrate translocation pore; other site 349106004501 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004502 Transposase; Region: HTH_Tnp_1; pfam01527 349106004503 HTH-like domain; Region: HTH_21; pfam13276 349106004504 Integrase core domain; Region: rve; pfam00665 349106004505 Integrase core domain; Region: rve_3; pfam13683 349106004506 Integrase core domain; Region: rve; pfam00665 349106004507 Integrase core domain; Region: rve_3; pfam13683 349106004508 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; cd00569 349106004509 DNA-binding interface [nucleotide binding]; DNA binding site 349106004510 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 349106004511 putative transposase OrfB; Reviewed; Region: PHA02517 349106004512 HTH-like domain; Region: HTH_21; pfam13276 349106004513 Integrase core domain; Region: rve; pfam00665 349106004514 Integrase core domain; Region: rve_3; pfam13683 349106004515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004516 Transposase; Region: HTH_Tnp_1; pfam01527 349106004517 HTH-like domain; Region: HTH_21; pfam13276 349106004518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106004519 Integrase core domain; Region: rve; pfam00665 349106004520 Integrase core domain; Region: rve_2; pfam13333 349106004521 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004522 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106004523 Helix-turn-helix domain; Region: HTH_28; pfam13518 349106004524 Transposase; Region: HTH_Tnp_1; pfam01527 349106004525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004526 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 349106004527 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 349106004528 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 349106004529 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 349106004530 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106004531 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 349106004532 outer membrane receptor FepA; Provisional; Region: PRK13524 349106004533 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 349106004534 N-terminal plug; other site 349106004535 ligand-binding site [chemical binding]; other site 349106004536 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 349106004537 Isochorismatase family; Region: Isochorismatase; pfam00857 349106004538 catalytic triad [active] 349106004539 conserved cis-peptide bond; other site 349106004540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 349106004541 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 349106004542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 349106004543 Nucleoside recognition; Region: Gate; pfam07670 349106004544 Integrase core domain; Region: rve; pfam00665 349106004545 Integrase core domain; Region: rve_3; pfam13683 349106004546 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; cd00569 349106004547 DNA-binding interface [nucleotide binding]; DNA binding site 349106004548 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 349106004549 putative transposase OrfB; Reviewed; Region: PHA02517 349106004550 HTH-like domain; Region: HTH_21; pfam13276 349106004551 Integrase core domain; Region: rve; pfam00665 349106004552 Integrase core domain; Region: rve_3; cl15866 349106004553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004554 Transposase; Region: HTH_Tnp_1; pfam01527 349106004555 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 349106004556 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 349106004557 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 349106004558 Spore germination protein; Region: Spore_permease; cl17796 349106004559 putative arabinose transporter; Provisional; Region: PRK03545 349106004560 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 349106004561 putative substrate translocation pore; other site 349106004562 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 349106004563 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 349106004564 N-terminal plug; other site 349106004565 ligand-binding site [chemical binding]; other site 349106004566 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 349106004567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 349106004568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106004569 Walker A/P-loop; other site 349106004570 ATP binding site [chemical binding]; other site 349106004571 Q-loop/lid; other site 349106004572 ABC transporter signature motif; other site 349106004573 Walker B; other site 349106004574 D-loop; other site 349106004575 H-loop/switch region; other site 349106004576 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 349106004577 FAD binding pocket [chemical binding]; other site 349106004578 conserved FAD binding motif [chemical binding]; other site 349106004579 phosphate binding motif [ion binding]; other site 349106004580 beta-alpha-beta structure motif; other site 349106004581 NAD binding pocket [chemical binding]; other site 349106004582 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 349106004583 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 349106004584 N-terminal plug; other site 349106004585 ligand-binding site [chemical binding]; other site 349106004586 Integrase core domain; Region: rve; pfam00665 349106004587 Integrase core domain; Region: rve_3; pfam13683 349106004588 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; cd00569 349106004589 DNA-binding interface [nucleotide binding]; DNA binding site 349106004590 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 349106004591 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 349106004592 N-terminal plug; other site 349106004593 ligand-binding site [chemical binding]; other site 349106004594 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 349106004595 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 349106004596 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 349106004597 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 349106004598 intersubunit interface [polypeptide binding]; other site 349106004599 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 349106004600 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 349106004601 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 349106004602 ABC-ATPase subunit interface; other site 349106004603 dimer interface [polypeptide binding]; other site 349106004604 putative PBP binding regions; other site 349106004605 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349106004606 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106004607 Walker A/P-loop; other site 349106004608 ATP binding site [chemical binding]; other site 349106004609 Q-loop/lid; other site 349106004610 ABC transporter signature motif; other site 349106004611 Walker B; other site 349106004612 D-loop; other site 349106004613 H-loop/switch region; other site 349106004614 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 349106004615 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 349106004616 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 349106004617 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 349106004618 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 349106004619 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 349106004620 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 349106004621 Uncharacterized conserved protein [Function unknown]; Region: COG2353 349106004622 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 349106004623 Domain of unknown function (DUF305); Region: DUF305; pfam03713 349106004624 Uncharacterized membrane protein [Function unknown]; Region: COG3949 349106004625 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 349106004626 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 349106004627 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 349106004628 N-terminal plug; other site 349106004629 ligand-binding site [chemical binding]; other site 349106004630 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 349106004631 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 349106004632 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 349106004633 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 349106004634 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 349106004635 N-terminal plug; other site 349106004636 ligand-binding site [chemical binding]; other site 349106004637 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106004638 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106004639 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349106004640 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 349106004641 peptide binding site [polypeptide binding]; other site 349106004642 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 349106004643 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 349106004644 dimer interface [polypeptide binding]; other site 349106004645 conserved gate region; other site 349106004646 putative PBP binding loops; other site 349106004647 ABC-ATPase subunit interface; other site 349106004648 dipeptide transporter; Provisional; Region: PRK10913 349106004649 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 349106004650 dimer interface [polypeptide binding]; other site 349106004651 conserved gate region; other site 349106004652 putative PBP binding loops; other site 349106004653 ABC-ATPase subunit interface; other site 349106004654 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 349106004655 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349106004656 Walker A/P-loop; other site 349106004657 ATP binding site [chemical binding]; other site 349106004658 Q-loop/lid; other site 349106004659 ABC transporter signature motif; other site 349106004660 Walker B; other site 349106004661 D-loop; other site 349106004662 H-loop/switch region; other site 349106004663 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106004664 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 349106004665 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 349106004666 Walker A/P-loop; other site 349106004667 ATP binding site [chemical binding]; other site 349106004668 Q-loop/lid; other site 349106004669 ABC transporter signature motif; other site 349106004670 Walker B; other site 349106004671 D-loop; other site 349106004672 H-loop/switch region; other site 349106004673 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 349106004674 amino acid transporter; Region: 2A0306; TIGR00909 349106004675 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 349106004676 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 349106004677 inhibitor-cofactor binding pocket; inhibition site 349106004678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004679 catalytic residue [active] 349106004680 succinic semialdehyde dehydrogenase; Region: PLN02278 349106004681 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 349106004682 tetramerization interface [polypeptide binding]; other site 349106004683 NAD(P) binding site [chemical binding]; other site 349106004684 catalytic residues [active] 349106004685 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 349106004686 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106004687 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106004688 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 349106004689 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349106004690 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 349106004691 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349106004692 FAD binding site [chemical binding]; other site 349106004693 substrate binding pocket [chemical binding]; other site 349106004694 catalytic base [active] 349106004695 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 349106004696 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106004697 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106004698 transketolase; Reviewed; Region: PRK12753 349106004699 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 349106004700 TPP-binding site [chemical binding]; other site 349106004701 dimer interface [polypeptide binding]; other site 349106004702 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 349106004703 PYR/PP interface [polypeptide binding]; other site 349106004704 dimer interface [polypeptide binding]; other site 349106004705 TPP binding site [chemical binding]; other site 349106004706 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349106004707 seryl-tRNA synthetase; Provisional; Region: PRK05431 349106004708 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 349106004709 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 349106004710 dimer interface [polypeptide binding]; other site 349106004711 active site 349106004712 motif 1; other site 349106004713 motif 2; other site 349106004714 motif 3; other site 349106004715 YcxB-like protein; Region: YcxB; pfam14317 349106004716 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 349106004717 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 349106004718 dimerization interface [polypeptide binding]; other site 349106004719 DPS ferroxidase diiron center [ion binding]; other site 349106004720 ion pore; other site 349106004721 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 349106004722 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 349106004723 transmembrane helices; other site 349106004724 AzlC protein; Region: AzlC; cl00570 349106004725 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 349106004726 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 349106004727 Aspartase; Region: Aspartase; cd01357 349106004728 active sites [active] 349106004729 tetramer interface [polypeptide binding]; other site 349106004730 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 349106004731 active site 349106004732 SAM binding site [chemical binding]; other site 349106004733 homodimer interface [polypeptide binding]; other site 349106004734 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 349106004735 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 349106004736 [4Fe-4S] binding site [ion binding]; other site 349106004737 molybdopterin cofactor binding site; other site 349106004738 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 349106004739 molybdopterin cofactor binding site; other site 349106004740 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349106004741 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 349106004742 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106004743 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106004744 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 349106004745 active site 349106004746 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349106004747 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349106004748 active site 349106004749 ATP binding site [chemical binding]; other site 349106004750 substrate binding site [chemical binding]; other site 349106004751 activation loop (A-loop); other site 349106004752 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 349106004753 putative substrate translocation pore; other site 349106004754 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 349106004755 nitrite reductase subunit NirD; Provisional; Region: PRK14989 349106004756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106004757 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106004758 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349106004759 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349106004760 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349106004761 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 349106004762 excinuclease ABC subunit B; Provisional; Region: PRK05298 349106004763 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 349106004764 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 349106004765 ATP-binding site [chemical binding]; other site 349106004766 ATP binding site [chemical binding]; other site 349106004767 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 349106004768 nucleotide binding region [chemical binding]; other site 349106004769 ATP-binding site [chemical binding]; other site 349106004770 Ultra-violet resistance protein B; Region: UvrB; pfam12344 349106004771 UvrB/uvrC motif; Region: UVR; pfam02151 349106004772 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 349106004773 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 349106004774 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 349106004775 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 349106004776 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 349106004777 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 349106004778 PIF1-like helicase; Region: PIF1; pfam05970 349106004779 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 349106004780 Walker A motif; other site 349106004781 ATP binding site [chemical binding]; other site 349106004782 Walker B motif; other site 349106004783 Helicase; Region: Herpes_Helicase; pfam02689 349106004784 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349106004785 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349106004786 NAD(P) binding site [chemical binding]; other site 349106004787 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349106004788 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 349106004789 Proline dehydrogenase; Region: Pro_dh; pfam01619 349106004790 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 349106004791 Glutamate binding site [chemical binding]; other site 349106004792 NAD binding site [chemical binding]; other site 349106004793 catalytic residues [active] 349106004794 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 349106004795 TolQ protein; Region: tolQ; TIGR02796 349106004796 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 349106004797 TolR protein; Region: tolR; TIGR02801 349106004798 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 349106004799 TolB amino-terminal domain; Region: TolB_N; pfam04052 349106004800 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349106004801 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 349106004802 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349106004803 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 349106004804 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 349106004805 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349106004806 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 349106004807 RNA binding surface [nucleotide binding]; other site 349106004808 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349106004809 active site 349106004810 Outer membrane lipoprotein; Region: YfiO; pfam13525 349106004811 CHC2 zinc finger; Region: zf-CHC2; pfam01807 349106004812 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 349106004813 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 349106004814 active site 349106004815 metal binding site [ion binding]; metal-binding site 349106004816 interdomain interaction site; other site 349106004817 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 349106004818 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 349106004819 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 349106004820 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349106004821 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 349106004822 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349106004823 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349106004824 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 349106004825 DNA binding residues [nucleotide binding] 349106004826 Protein of unknown function (DUF493); Region: DUF493; pfam04359 349106004827 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 349106004828 ATP cone domain; Region: ATP-cone; pfam03477 349106004829 Class I ribonucleotide reductase; Region: RNR_I; cd01679 349106004830 active site 349106004831 dimer interface [polypeptide binding]; other site 349106004832 catalytic residues [active] 349106004833 effector binding site; other site 349106004834 R2 peptide binding site; other site 349106004835 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 349106004836 dimer interface [polypeptide binding]; other site 349106004837 putative radical transfer pathway; other site 349106004838 diiron center [ion binding]; other site 349106004839 tyrosyl radical; other site 349106004840 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 349106004841 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 349106004842 catalytic loop [active] 349106004843 iron binding site [ion binding]; other site 349106004844 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 349106004845 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 349106004846 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 349106004847 protein binding site [polypeptide binding]; other site 349106004848 Uncharacterized conserved protein [Function unknown]; Region: COG0327 349106004849 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 349106004850 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 349106004851 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106004852 catalytic residue [active] 349106004853 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 349106004854 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 349106004855 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106004856 catalytic residue [active] 349106004857 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004858 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004859 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004860 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 349106004861 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004862 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004863 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 349106004864 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004865 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004866 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106004867 Domain of unknown function DUF21; Region: DUF21; pfam01595 349106004868 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 349106004869 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 349106004870 IHF - DNA interface [nucleotide binding]; other site 349106004871 IHF dimer interface [polypeptide binding]; other site 349106004872 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 349106004873 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 349106004874 RNA binding site [nucleotide binding]; other site 349106004875 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 349106004876 RNA binding site [nucleotide binding]; other site 349106004877 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 349106004878 RNA binding site [nucleotide binding]; other site 349106004879 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 349106004880 RNA binding site [nucleotide binding]; other site 349106004881 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 349106004882 RNA binding site [nucleotide binding]; other site 349106004883 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 349106004884 RNA binding site [nucleotide binding]; other site 349106004885 cytidylate kinase; Provisional; Region: cmk; PRK00023 349106004886 AAA domain; Region: AAA_17; pfam13207 349106004887 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 349106004888 CMP-binding site; other site 349106004889 The sites determining sugar specificity; other site 349106004890 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 349106004891 nucleoside/Zn binding site; other site 349106004892 dimer interface [polypeptide binding]; other site 349106004893 catalytic motif [active] 349106004894 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 349106004895 ligand binding site [chemical binding]; other site 349106004896 active site 349106004897 UGI interface [polypeptide binding]; other site 349106004898 catalytic site [active] 349106004899 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 349106004900 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 349106004901 Walker A motif; other site 349106004902 ATP binding site [chemical binding]; other site 349106004903 Walker B motif; other site 349106004904 arginine finger; other site 349106004905 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 349106004906 Walker A motif; other site 349106004907 ATP binding site [chemical binding]; other site 349106004908 Walker B motif; other site 349106004909 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 349106004910 Membrane transport protein; Region: Mem_trans; cl09117 349106004911 benzoylformate decarboxylase; Reviewed; Region: PRK07092 349106004912 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349106004913 PYR/PP interface [polypeptide binding]; other site 349106004914 dimer interface [polypeptide binding]; other site 349106004915 TPP binding site [chemical binding]; other site 349106004916 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349106004917 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 349106004918 TPP-binding site [chemical binding]; other site 349106004919 dimer interface [polypeptide binding]; other site 349106004920 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 349106004921 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 349106004922 PYR/PP interface [polypeptide binding]; other site 349106004923 dimer interface [polypeptide binding]; other site 349106004924 tetramer interface [polypeptide binding]; other site 349106004925 TPP binding site [chemical binding]; other site 349106004926 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349106004927 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 349106004928 TPP-binding site [chemical binding]; other site 349106004929 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 349106004930 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 349106004931 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 349106004932 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 349106004933 substrate binding site [chemical binding]; other site 349106004934 active site 349106004935 gamma-glutamyl kinase; Provisional; Region: PRK05429 349106004936 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 349106004937 nucleotide binding site [chemical binding]; other site 349106004938 homotetrameric interface [polypeptide binding]; other site 349106004939 putative phosphate binding site [ion binding]; other site 349106004940 putative allosteric binding site; other site 349106004941 PUA domain; Region: PUA; pfam01472 349106004942 GTPase CgtA; Reviewed; Region: obgE; PRK12298 349106004943 GTP1/OBG; Region: GTP1_OBG; pfam01018 349106004944 Obg GTPase; Region: Obg; cd01898 349106004945 G1 box; other site 349106004946 GTP/Mg2+ binding site [chemical binding]; other site 349106004947 Switch I region; other site 349106004948 G2 box; other site 349106004949 G3 box; other site 349106004950 Switch II region; other site 349106004951 G4 box; other site 349106004952 G5 box; other site 349106004953 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 349106004954 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 349106004955 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 349106004956 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 349106004957 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 349106004958 hypothetical protein; Provisional; Region: PRK08999 349106004959 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 349106004960 active site 349106004961 8-oxo-dGMP binding site [chemical binding]; other site 349106004962 nudix motif; other site 349106004963 metal binding site [ion binding]; metal-binding site 349106004964 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 349106004965 active site 349106004966 thiamine phosphate binding site [chemical binding]; other site 349106004967 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 349106004968 Family of unknown function (DUF490); Region: DUF490; pfam04357 349106004969 Surface antigen; Region: Bac_surface_Ag; pfam01103 349106004970 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 349106004971 Domain of unknown function (DUF389); Region: DUF389; pfam04087 349106004972 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 349106004973 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 349106004974 motif 1; other site 349106004975 active site 349106004976 motif 2; other site 349106004977 motif 3; other site 349106004978 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 349106004979 DHHA1 domain; Region: DHHA1; pfam02272 349106004980 aspartate kinase; Reviewed; Region: PRK06635 349106004981 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 349106004982 putative nucleotide binding site [chemical binding]; other site 349106004983 putative catalytic residues [active] 349106004984 putative Mg ion binding site [ion binding]; other site 349106004985 putative aspartate binding site [chemical binding]; other site 349106004986 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 349106004987 putative allosteric regulatory site; other site 349106004988 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 349106004989 carbon storage regulator; Provisional; Region: PRK01712 349106004990 HopJ type III effector protein; Region: HopJ; pfam08888 349106004991 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 349106004992 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 349106004993 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 349106004994 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 349106004995 Bax inhibitor 1 like; Region: BaxI_1; cl17691 349106004996 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 349106004997 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349106004998 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 349106004999 metal-binding site [ion binding] 349106005000 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 349106005001 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349106005002 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 349106005003 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 349106005004 Transglycosylase; Region: Transgly; pfam00912 349106005005 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 349106005006 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 349106005007 TPR motif; other site 349106005008 Tetratricopeptide repeat; Region: TPR_16; pfam13432 349106005009 binding surface 349106005010 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 349106005011 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 349106005012 S-adenosylmethionine binding site [chemical binding]; other site 349106005013 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 349106005014 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 349106005015 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 349106005016 purine monophosphate binding site [chemical binding]; other site 349106005017 dimer interface [polypeptide binding]; other site 349106005018 putative catalytic residues [active] 349106005019 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 349106005020 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 349106005021 periplasmic folding chaperone; Provisional; Region: PRK10788 349106005022 SurA N-terminal domain; Region: SurA_N_3; cl07813 349106005023 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 349106005024 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 349106005025 IHF dimer interface [polypeptide binding]; other site 349106005026 IHF - DNA interface [nucleotide binding]; other site 349106005027 Transcriptional regulator; Region: Rrf2; cl17282 349106005028 Rrf2 family protein; Region: rrf2_super; TIGR00738 349106005029 cysteine desulfurase; Provisional; Region: PRK14012 349106005030 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 349106005031 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106005032 catalytic residue [active] 349106005033 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 349106005034 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 349106005035 trimerization site [polypeptide binding]; other site 349106005036 active site 349106005037 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349106005038 co-chaperone HscB; Provisional; Region: hscB; PRK05014 349106005039 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 349106005040 HSP70 interaction site [polypeptide binding]; other site 349106005041 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 349106005042 chaperone protein HscA; Provisional; Region: hscA; PRK05183 349106005043 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 349106005044 nucleotide binding site [chemical binding]; other site 349106005045 putative NEF/HSP70 interaction site [polypeptide binding]; other site 349106005046 SBD interface [polypeptide binding]; other site 349106005047 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 349106005048 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 349106005049 catalytic loop [active] 349106005050 iron binding site [ion binding]; other site 349106005051 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 349106005052 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 349106005053 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 349106005054 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 349106005055 ATP binding site [chemical binding]; other site 349106005056 putative Mg++ binding site [ion binding]; other site 349106005057 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 349106005058 nucleotide binding region [chemical binding]; other site 349106005059 ATP-binding site [chemical binding]; other site 349106005060 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 349106005061 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 349106005062 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 349106005063 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 349106005064 NAD binding site [chemical binding]; other site 349106005065 active site 349106005066 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 349106005067 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 349106005068 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 349106005069 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 349106005070 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 349106005071 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 349106005072 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 349106005073 putative MPT binding site; other site 349106005074 Protein of unknown function (DUF541); Region: SIMPL; cl01077 349106005075 glutamine synthetase; Provisional; Region: glnA; PRK09469 349106005076 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 349106005077 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349106005078 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 349106005079 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 349106005080 glutamine binding [chemical binding]; other site 349106005081 catalytic triad [active] 349106005082 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349106005083 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 349106005084 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349106005085 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 349106005086 active site 349106005087 ribulose/triose binding site [chemical binding]; other site 349106005088 phosphate binding site [ion binding]; other site 349106005089 substrate (anthranilate) binding pocket [chemical binding]; other site 349106005090 product (indole) binding pocket [chemical binding]; other site 349106005091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 349106005092 Smr domain; Region: Smr; pfam01713 349106005093 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349106005094 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106005095 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 349106005096 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 349106005097 N-terminal plug; other site 349106005098 ligand-binding site [chemical binding]; other site 349106005099 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106005100 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106005101 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349106005102 putative catalytic site [active] 349106005103 putative metal binding site [ion binding]; other site 349106005104 putative phosphate binding site [ion binding]; other site 349106005105 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 349106005106 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 349106005107 N- and C-terminal domain interface [polypeptide binding]; other site 349106005108 active site 349106005109 MgATP binding site [chemical binding]; other site 349106005110 catalytic site [active] 349106005111 metal binding site [ion binding]; metal-binding site 349106005112 glycerol binding site [chemical binding]; other site 349106005113 homotetramer interface [polypeptide binding]; other site 349106005114 homodimer interface [polypeptide binding]; other site 349106005115 FBP binding site [chemical binding]; other site 349106005116 protein IIAGlc interface [polypeptide binding]; other site 349106005117 HemN family oxidoreductase; Provisional; Region: PRK05660 349106005118 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 349106005119 FeS/SAM binding site; other site 349106005120 HemN C-terminal domain; Region: HemN_C; pfam06969 349106005121 multidrug efflux protein; Reviewed; Region: PRK01766 349106005122 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 349106005123 cation binding site [ion binding]; other site 349106005124 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 349106005125 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 349106005126 carboxyltransferase (CT) interaction site; other site 349106005127 biotinylation site [posttranslational modification]; other site 349106005128 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 349106005129 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106005130 ATP-grasp domain; Region: ATP-grasp_4; cl17255 349106005131 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 349106005132 argininosuccinate synthase; Provisional; Region: PRK13820 349106005133 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 349106005134 ANP binding site [chemical binding]; other site 349106005135 Substrate Binding Site II [chemical binding]; other site 349106005136 Substrate Binding Site I [chemical binding]; other site 349106005137 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 349106005138 active site 349106005139 substrate binding pocket [chemical binding]; other site 349106005140 dimer interface [polypeptide binding]; other site 349106005141 ribonuclease T; Provisional; Region: PRK05168 349106005142 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 349106005143 active site 349106005144 catalytic site [active] 349106005145 substrate binding site [chemical binding]; other site 349106005146 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 349106005147 substrate binding site; other site 349106005148 dimer interface; other site 349106005149 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 349106005150 Septum formation initiator; Region: DivIC; cl17659 349106005151 enolase; Provisional; Region: eno; PRK00077 349106005152 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 349106005153 dimer interface [polypeptide binding]; other site 349106005154 metal binding site [ion binding]; metal-binding site 349106005155 substrate binding pocket [chemical binding]; other site 349106005156 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349106005157 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 349106005158 metal-binding site [ion binding] 349106005159 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349106005160 Soluble P-type ATPase [General function prediction only]; Region: COG4087 349106005161 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 349106005162 metal-binding site [ion binding] 349106005163 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 349106005164 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 349106005165 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 349106005166 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106005167 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106005168 Probable transposase; Region: OrfB_IS605; pfam01385 349106005169 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106005170 CTP synthetase; Validated; Region: pyrG; PRK05380 349106005171 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 349106005172 Catalytic site [active] 349106005173 active site 349106005174 UTP binding site [chemical binding]; other site 349106005175 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 349106005176 active site 349106005177 putative oxyanion hole; other site 349106005178 catalytic triad [active] 349106005179 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 349106005180 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 349106005181 eyelet of channel; other site 349106005182 trimer interface [polypeptide binding]; other site 349106005183 malate synthase G; Provisional; Region: PRK02999 349106005184 active site 349106005185 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 349106005186 active site 349106005187 dinuclear metal binding site [ion binding]; other site 349106005188 dimerization interface [polypeptide binding]; other site 349106005189 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 349106005190 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349106005191 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 349106005192 polyphosphate kinase; Provisional; Region: PRK05443 349106005193 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 349106005194 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 349106005195 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 349106005196 putative active site [active] 349106005197 catalytic site [active] 349106005198 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 349106005199 putative domain interface [polypeptide binding]; other site 349106005200 putative active site [active] 349106005201 catalytic site [active] 349106005202 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 349106005203 Transglycosylase; Region: Transgly; cl17702 349106005204 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 349106005205 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 349106005206 L-lactate permease; Region: Lactate_perm; cl00701 349106005207 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 349106005208 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 349106005209 active site 349106005210 substrate binding site [chemical binding]; other site 349106005211 FMN binding site [chemical binding]; other site 349106005212 putative catalytic residues [active] 349106005213 Rhomboid family; Region: Rhomboid; pfam01694 349106005214 MltA-interacting protein MipA; Region: MipA; cl01504 349106005215 ferredoxin-NADP reductase; Provisional; Region: PRK10926 349106005216 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 349106005217 FAD binding pocket [chemical binding]; other site 349106005218 FAD binding motif [chemical binding]; other site 349106005219 phosphate binding motif [ion binding]; other site 349106005220 beta-alpha-beta structure motif; other site 349106005221 NAD binding pocket [chemical binding]; other site 349106005222 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 349106005223 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349106005224 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 349106005225 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349106005226 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 349106005227 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 349106005228 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 349106005229 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 349106005230 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 349106005231 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 349106005232 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 349106005233 4Fe-4S binding domain; Region: Fer4; cl02805 349106005234 4Fe-4S binding domain; Region: Fer4; pfam00037 349106005235 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 349106005236 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 349106005237 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 349106005238 catalytic loop [active] 349106005239 iron binding site [ion binding]; other site 349106005240 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 349106005241 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 349106005242 [4Fe-4S] binding site [ion binding]; other site 349106005243 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 349106005244 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 349106005245 SLBB domain; Region: SLBB; pfam10531 349106005246 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 349106005247 NADH dehydrogenase subunit E; Validated; Region: PRK07539 349106005248 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 349106005249 putative dimer interface [polypeptide binding]; other site 349106005250 [2Fe-2S] cluster binding site [ion binding]; other site 349106005251 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 349106005252 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 349106005253 NADH dehydrogenase subunit D; Validated; Region: PRK06075 349106005254 NADH dehydrogenase subunit B; Validated; Region: PRK06411 349106005255 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 349106005256 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349106005257 trimer interface [polypeptide binding]; other site 349106005258 active site 349106005259 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 349106005260 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 349106005261 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 349106005262 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 349106005263 MgtE intracellular N domain; Region: MgtE_N; pfam03448 349106005264 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 349106005265 Divalent cation transporter; Region: MgtE; cl00786 349106005266 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 349106005267 classical (c) SDRs; Region: SDR_c; cd05233 349106005268 NAD(P) binding site [chemical binding]; other site 349106005269 active site 349106005270 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 349106005271 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 349106005272 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 349106005273 fructuronate transporter; Provisional; Region: PRK10034; cl15264 349106005274 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 349106005275 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 349106005276 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 349106005277 active site 349106005278 HIGH motif; other site 349106005279 KMSKS motif; other site 349106005280 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 349106005281 anticodon binding site; other site 349106005282 tRNA binding surface [nucleotide binding]; other site 349106005283 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 349106005284 dimer interface [polypeptide binding]; other site 349106005285 putative tRNA-binding site [nucleotide binding]; other site 349106005286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106005287 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106005288 Probable transposase; Region: OrfB_IS605; pfam01385 349106005289 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106005290 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 349106005291 zinc binding site [ion binding]; other site 349106005292 putative ligand binding site [chemical binding]; other site 349106005293 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 349106005294 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349106005295 zinc binding site [ion binding]; other site 349106005296 putative ligand binding site [chemical binding]; other site 349106005297 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 349106005298 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 349106005299 TM-ABC transporter signature motif; other site 349106005300 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 349106005301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106005302 Walker A/P-loop; other site 349106005303 ATP binding site [chemical binding]; other site 349106005304 Q-loop/lid; other site 349106005305 ABC transporter signature motif; other site 349106005306 Walker B; other site 349106005307 D-loop; other site 349106005308 H-loop/switch region; other site 349106005309 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 349106005310 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 349106005311 NAD(P) binding pocket [chemical binding]; other site 349106005312 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 349106005313 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 349106005314 dimer interface [polypeptide binding]; other site 349106005315 active site 349106005316 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106005317 catalytic residues [active] 349106005318 substrate binding site [chemical binding]; other site 349106005319 Septum formation; Region: Septum_form; pfam13845 349106005320 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 349106005321 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 349106005322 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349106005323 Walker A motif; other site 349106005324 ATP binding site [chemical binding]; other site 349106005325 Walker B motif; other site 349106005326 arginine finger; other site 349106005327 YcgL domain; Region: YcgL; pfam05166 349106005328 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 349106005329 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349106005330 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 349106005331 lipoyl attachment site [posttranslational modification]; other site 349106005332 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 349106005333 dimer interface [polypeptide binding]; other site 349106005334 FMN binding site [chemical binding]; other site 349106005335 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 349106005336 dimer interface [polypeptide binding]; other site 349106005337 glycine dehydrogenase; Provisional; Region: PRK05367 349106005338 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 349106005339 tetramer interface [polypeptide binding]; other site 349106005340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005341 catalytic residue [active] 349106005342 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 349106005343 tetramer interface [polypeptide binding]; other site 349106005344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005345 catalytic residue [active] 349106005346 Putative serine esterase (DUF676); Region: DUF676; pfam05057 349106005347 ribonuclease D; Region: rnd; TIGR01388 349106005348 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 349106005349 catalytic site [active] 349106005350 putative active site [active] 349106005351 putative substrate binding site [chemical binding]; other site 349106005352 HRDC domain; Region: HRDC; pfam00570 349106005353 recombination protein RecR; Reviewed; Region: recR; PRK00076 349106005354 RecR protein; Region: RecR; pfam02132 349106005355 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 349106005356 putative active site [active] 349106005357 putative metal-binding site [ion binding]; other site 349106005358 tetramer interface [polypeptide binding]; other site 349106005359 hypothetical protein; Validated; Region: PRK00153 349106005360 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 349106005361 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 349106005362 homodimer interface [polypeptide binding]; other site 349106005363 substrate-cofactor binding pocket; other site 349106005364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005365 catalytic residue [active] 349106005366 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349106005367 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 349106005368 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 349106005369 PLD-like domain; Region: PLDc_2; pfam13091 349106005370 putative active site [active] 349106005371 catalytic site [active] 349106005372 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 349106005373 PLD-like domain; Region: PLDc_2; pfam13091 349106005374 putative active site [active] 349106005375 catalytic site [active] 349106005376 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 349106005377 metabolite-proton symporter; Region: 2A0106; TIGR00883 349106005378 putative substrate translocation pore; other site 349106005379 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 349106005380 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 349106005381 FMN binding site [chemical binding]; other site 349106005382 active site 349106005383 catalytic residues [active] 349106005384 substrate binding site [chemical binding]; other site 349106005385 CAAX protease self-immunity; Region: Abi; pfam02517 349106005386 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106005387 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 349106005388 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 349106005389 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349106005390 tandem repeat interface [polypeptide binding]; other site 349106005391 oligomer interface [polypeptide binding]; other site 349106005392 active site residues [active] 349106005393 Competence protein; Region: Competence; pfam03772 349106005394 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 349106005395 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349106005396 Walker A/P-loop; other site 349106005397 ATP binding site [chemical binding]; other site 349106005398 Q-loop/lid; other site 349106005399 ABC transporter signature motif; other site 349106005400 Walker B; other site 349106005401 D-loop; other site 349106005402 H-loop/switch region; other site 349106005403 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 349106005404 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349106005405 FtsX-like permease family; Region: FtsX; pfam02687 349106005406 SCP-2 sterol transfer family; Region: SCP2; pfam02036 349106005407 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 349106005408 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 349106005409 Low-spin heme binding site [chemical binding]; other site 349106005410 Putative water exit pathway; other site 349106005411 Binuclear center (active site) [active] 349106005412 Putative proton exit pathway; other site 349106005413 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 349106005414 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 349106005415 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 349106005416 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 349106005417 Cytochrome c; Region: Cytochrom_C; pfam00034 349106005418 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 349106005419 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 349106005420 4Fe-4S binding domain; Region: Fer4_5; pfam12801 349106005421 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 349106005422 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 349106005423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 349106005424 FixH; Region: FixH; pfam05751 349106005425 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 349106005426 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 349106005427 Ligand Binding Site [chemical binding]; other site 349106005428 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 349106005429 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 349106005430 Substrate binding site; other site 349106005431 metal-binding site 349106005432 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 349106005433 Phosphotransferase enzyme family; Region: APH; pfam01636 349106005434 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 349106005435 Organic solvent tolerance protein; Region: OstA_C; pfam04453 349106005436 SurA N-terminal domain; Region: SurA_N; pfam09312 349106005437 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 349106005438 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 349106005439 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 349106005440 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106005441 Peptidase family M23; Region: Peptidase_M23; pfam01551 349106005442 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 349106005443 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 349106005444 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 349106005445 GTP-binding protein Der; Reviewed; Region: PRK00093 349106005446 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 349106005447 G1 box; other site 349106005448 GTP/Mg2+ binding site [chemical binding]; other site 349106005449 Switch I region; other site 349106005450 G2 box; other site 349106005451 Switch II region; other site 349106005452 G3 box; other site 349106005453 G4 box; other site 349106005454 G5 box; other site 349106005455 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 349106005456 G1 box; other site 349106005457 GTP/Mg2+ binding site [chemical binding]; other site 349106005458 Switch I region; other site 349106005459 G2 box; other site 349106005460 G3 box; other site 349106005461 Switch II region; other site 349106005462 G4 box; other site 349106005463 G5 box; other site 349106005464 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 349106005465 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 349106005466 TrkA-N domain; Region: TrkA_N; pfam02254 349106005467 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 349106005468 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 349106005469 S-adenosylmethionine binding site [chemical binding]; other site 349106005470 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 349106005471 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 349106005472 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 349106005473 putative active site [active] 349106005474 metal binding site [ion binding]; metal-binding site 349106005475 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 349106005476 Ligand Binding Site [chemical binding]; other site 349106005477 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 349106005478 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 349106005479 catalytic triad [active] 349106005480 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 349106005481 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106005482 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106005483 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106005484 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106005485 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 349106005486 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 349106005487 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 349106005488 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 349106005489 S-adenosylmethionine binding site [chemical binding]; other site 349106005490 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 349106005491 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 349106005492 S-adenosylmethionine binding site [chemical binding]; other site 349106005493 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 349106005494 muropeptide transporter; Validated; Region: ampG; cl17669 349106005495 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 349106005496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106005497 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 349106005498 dimerization interface [polypeptide binding]; other site 349106005499 substrate binding site [chemical binding]; other site 349106005500 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 349106005501 TraX protein; Region: TraX; cl05434 349106005502 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 349106005503 Trp docking motif [polypeptide binding]; other site 349106005504 putative active site [active] 349106005505 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 349106005506 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349106005507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106005508 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106005509 Probable transposase; Region: OrfB_IS605; pfam01385 349106005510 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106005511 Predicted permeases [General function prediction only]; Region: COG0679 349106005512 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 349106005513 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 349106005514 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 349106005515 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349106005516 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349106005517 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349106005518 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349106005519 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349106005520 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349106005521 Peptidase M15; Region: Peptidase_M15_3; cl01194 349106005522 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 349106005523 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 349106005524 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 349106005525 FeS/SAM binding site; other site 349106005526 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 349106005527 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 349106005528 putative ADP-binding pocket [chemical binding]; other site 349106005529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106005530 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349106005531 putative catalytic site [active] 349106005532 putative metal binding site [ion binding]; other site 349106005533 putative phosphate binding site [ion binding]; other site 349106005534 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 349106005535 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 349106005536 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 349106005537 Na2 binding site [ion binding]; other site 349106005538 putative substrate binding site 1 [chemical binding]; other site 349106005539 Na binding site 1 [ion binding]; other site 349106005540 putative substrate binding site 2 [chemical binding]; other site 349106005541 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 349106005542 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 349106005543 active site 349106005544 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 349106005545 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 349106005546 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 349106005547 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 349106005548 trimer interface [polypeptide binding]; other site 349106005549 active site 349106005550 UDP-GlcNAc binding site [chemical binding]; other site 349106005551 lipid binding site [chemical binding]; lipid-binding site 349106005552 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 349106005553 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349106005554 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349106005555 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349106005556 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349106005557 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 349106005558 Surface antigen; Region: Bac_surface_Ag; pfam01103 349106005559 zinc metallopeptidase RseP; Provisional; Region: PRK10779 349106005560 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 349106005561 active site 349106005562 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 349106005563 protein binding site [polypeptide binding]; other site 349106005564 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 349106005565 protein binding site [polypeptide binding]; other site 349106005566 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 349106005567 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 349106005568 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 349106005569 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 349106005570 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 349106005571 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 349106005572 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 349106005573 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 349106005574 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 349106005575 catalytic residue [active] 349106005576 putative FPP diphosphate binding site; other site 349106005577 putative FPP binding hydrophobic cleft; other site 349106005578 dimer interface [polypeptide binding]; other site 349106005579 putative IPP diphosphate binding site; other site 349106005580 ribosome recycling factor; Reviewed; Region: frr; PRK00083 349106005581 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 349106005582 hinge region; other site 349106005583 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 349106005584 putative nucleotide binding site [chemical binding]; other site 349106005585 uridine monophosphate binding site [chemical binding]; other site 349106005586 homohexameric interface [polypeptide binding]; other site 349106005587 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 349106005588 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349106005589 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 349106005590 FeS/SAM binding site; other site 349106005591 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349106005592 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 349106005593 dimer interface [polypeptide binding]; other site 349106005594 phosphorylation site [posttranslational modification] 349106005595 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 349106005596 ATP binding site [chemical binding]; other site 349106005597 Mg2+ binding site [ion binding]; other site 349106005598 G-X-G motif; other site 349106005599 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 349106005600 Response regulator receiver domain; Region: Response_reg; pfam00072 349106005601 active site 349106005602 phosphorylation site [posttranslational modification] 349106005603 intermolecular recognition site; other site 349106005604 dimerization interface [polypeptide binding]; other site 349106005605 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 349106005606 Walker A motif; other site 349106005607 ATP binding site [chemical binding]; other site 349106005608 Walker B motif; other site 349106005609 arginine finger; other site 349106005610 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 349106005611 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349106005612 active site 349106005613 ATP binding site [chemical binding]; other site 349106005614 substrate binding site [chemical binding]; other site 349106005615 activation loop (A-loop); other site 349106005616 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106005617 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 349106005618 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 349106005619 Walker A motif; other site 349106005620 ATP binding site [chemical binding]; other site 349106005621 Walker B motif; other site 349106005622 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106005623 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 349106005624 putative active site [active] 349106005625 putative catalytic site [active] 349106005626 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 349106005627 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 349106005628 GDP-binding site [chemical binding]; other site 349106005629 ACT binding site; other site 349106005630 IMP binding site; other site 349106005631 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 349106005632 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 349106005633 dimer interface [polypeptide binding]; other site 349106005634 motif 1; other site 349106005635 active site 349106005636 motif 2; other site 349106005637 motif 3; other site 349106005638 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 349106005639 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 349106005640 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 349106005641 oligomer interface [polypeptide binding]; other site 349106005642 metal binding site [ion binding]; metal-binding site 349106005643 metal binding site [ion binding]; metal-binding site 349106005644 putative Cl binding site [ion binding]; other site 349106005645 basic sphincter; other site 349106005646 hydrophobic gate; other site 349106005647 periplasmic entrance; other site 349106005648 Phosphate-starvation-inducible E; Region: PsiE; cl01264 349106005649 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 349106005650 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 349106005651 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 349106005652 homodimer interface [polypeptide binding]; other site 349106005653 NADP binding site [chemical binding]; other site 349106005654 substrate binding site [chemical binding]; other site 349106005655 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 349106005656 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 349106005657 PapC N-terminal domain; Region: PapC_N; pfam13954 349106005658 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 349106005659 PapC C-terminal domain; Region: PapC_C; pfam13953 349106005660 putative chaperone protein EcpD; Provisional; Region: PRK09926 349106005661 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 349106005662 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 349106005663 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 349106005664 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 349106005665 dimer interface [polypeptide binding]; other site 349106005666 catalytic triad [active] 349106005667 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 349106005668 dimer interface [polypeptide binding]; other site 349106005669 allosteric magnesium binding site [ion binding]; other site 349106005670 active site 349106005671 aspartate-rich active site metal binding site; other site 349106005672 Schiff base residues; other site 349106005673 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 349106005674 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 349106005675 Part of AAA domain; Region: AAA_19; pfam13245 349106005676 Family description; Region: UvrD_C_2; pfam13538 349106005677 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 349106005678 MgtE intracellular N domain; Region: MgtE_N; smart00924 349106005679 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 349106005680 Divalent cation transporter; Region: MgtE; pfam01769 349106005681 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349106005682 trimer interface [polypeptide binding]; other site 349106005683 active site 349106005684 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 349106005685 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 349106005686 active site 349106005687 substrate binding site [chemical binding]; other site 349106005688 metal binding site [ion binding]; metal-binding site 349106005689 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 349106005690 feedback inhibition sensing region; other site 349106005691 homohexameric interface [polypeptide binding]; other site 349106005692 nucleotide binding site [chemical binding]; other site 349106005693 N-acetyl-L-glutamate binding site [chemical binding]; other site 349106005694 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 349106005695 ArsC family; Region: ArsC; pfam03960 349106005696 putative catalytic residues [active] 349106005697 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 349106005698 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 349106005699 HIGH motif; other site 349106005700 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349106005701 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106005702 active site 349106005703 KMSKS motif; other site 349106005704 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 349106005705 tRNA binding surface [nucleotide binding]; other site 349106005706 Lipopolysaccharide-assembly; Region: LptE; pfam04390 349106005707 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 349106005708 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 349106005709 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349106005710 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 349106005711 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 349106005712 HlyD family secretion protein; Region: HlyD_3; pfam13437 349106005713 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 349106005714 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 349106005715 Walker A/P-loop; other site 349106005716 ATP binding site [chemical binding]; other site 349106005717 Q-loop/lid; other site 349106005718 ABC transporter signature motif; other site 349106005719 Walker B; other site 349106005720 D-loop; other site 349106005721 H-loop/switch region; other site 349106005722 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349106005723 FtsX-like permease family; Region: FtsX; pfam02687 349106005724 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 349106005725 hydroperoxidase II; Provisional; Region: katE; PRK11249 349106005726 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 349106005727 tetramer interface [polypeptide binding]; other site 349106005728 heme binding pocket [chemical binding]; other site 349106005729 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 349106005730 domain interactions; other site 349106005731 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 349106005732 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106005733 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 349106005734 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 349106005735 Sporulation related domain; Region: SPOR; pfam05036 349106005736 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 349106005737 ThiS interaction site; other site 349106005738 putative active site [active] 349106005739 tetramer interface [polypeptide binding]; other site 349106005740 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 349106005741 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 349106005742 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 349106005743 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 349106005744 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 349106005745 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349106005746 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349106005747 Peptidase M16C associated; Region: M16C_assoc; pfam08367 349106005748 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 349106005749 catalytic core [active] 349106005750 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 349106005751 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349106005752 substrate binding site [chemical binding]; other site 349106005753 ATP binding site [chemical binding]; other site 349106005754 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 349106005755 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 349106005756 homodimer interface [polypeptide binding]; other site 349106005757 substrate-cofactor binding pocket; other site 349106005758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005759 catalytic residue [active] 349106005760 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 349106005761 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 349106005762 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 349106005763 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349106005764 Domain of unknown function DUF21; Region: DUF21; pfam01595 349106005765 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 349106005766 Transporter associated domain; Region: CorC_HlyC; smart01091 349106005767 Predicted permeases [General function prediction only]; Region: RarD; COG2962 349106005768 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 349106005769 glutathionine S-transferase; Provisional; Region: PRK10542 349106005770 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 349106005771 C-terminal domain interface [polypeptide binding]; other site 349106005772 GSH binding site (G-site) [chemical binding]; other site 349106005773 dimer interface [polypeptide binding]; other site 349106005774 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 349106005775 dimer interface [polypeptide binding]; other site 349106005776 N-terminal domain interface [polypeptide binding]; other site 349106005777 substrate binding pocket (H-site) [chemical binding]; other site 349106005778 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 349106005779 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106005780 active site 349106005781 nucleotide binding site [chemical binding]; other site 349106005782 HIGH motif; other site 349106005783 KMSKS motif; other site 349106005784 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 349106005785 nudix motif; other site 349106005786 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 349106005787 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 349106005788 active site 349106005789 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 349106005790 active site 349106005791 catalytic triad [active] 349106005792 oxyanion hole [active] 349106005793 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 349106005794 dihydroorotase; Provisional; Region: PRK07369 349106005795 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 349106005796 active site 349106005797 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 349106005798 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349106005799 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 349106005800 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 349106005801 AMP binding site [chemical binding]; other site 349106005802 metal binding site [ion binding]; metal-binding site 349106005803 active site 349106005804 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 349106005805 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 349106005806 hypothetical protein; Region: PHA01752 349106005807 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 349106005808 elongation factor Tu; Reviewed; Region: PRK00049 349106005809 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349106005810 G1 box; other site 349106005811 GEF interaction site [polypeptide binding]; other site 349106005812 GTP/Mg2+ binding site [chemical binding]; other site 349106005813 Switch I region; other site 349106005814 G2 box; other site 349106005815 G3 box; other site 349106005816 Switch II region; other site 349106005817 G4 box; other site 349106005818 G5 box; other site 349106005819 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 349106005820 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 349106005821 Antibiotic Binding Site [chemical binding]; other site 349106005822 elongation factor G; Reviewed; Region: PRK00007 349106005823 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 349106005824 G1 box; other site 349106005825 putative GEF interaction site [polypeptide binding]; other site 349106005826 GTP/Mg2+ binding site [chemical binding]; other site 349106005827 Switch I region; other site 349106005828 G2 box; other site 349106005829 G3 box; other site 349106005830 Switch II region; other site 349106005831 G4 box; other site 349106005832 G5 box; other site 349106005833 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 349106005834 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 349106005835 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 349106005836 30S ribosomal protein S7; Validated; Region: PRK05302 349106005837 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 349106005838 S17 interaction site [polypeptide binding]; other site 349106005839 S8 interaction site; other site 349106005840 16S rRNA interaction site [nucleotide binding]; other site 349106005841 streptomycin interaction site [chemical binding]; other site 349106005842 23S rRNA interaction site [nucleotide binding]; other site 349106005843 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 349106005844 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 349106005845 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 349106005846 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 349106005847 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349106005848 active site 349106005849 catalytic tetrad [active] 349106005850 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349106005851 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349106005852 putative acyl-acceptor binding pocket; other site 349106005853 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; cl00470 349106005854 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349106005855 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349106005856 putative acyl-acceptor binding pocket; other site 349106005857 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 349106005858 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 349106005859 HflX GTPase family; Region: HflX; cd01878 349106005860 G1 box; other site 349106005861 GTP/Mg2+ binding site [chemical binding]; other site 349106005862 Switch I region; other site 349106005863 G2 box; other site 349106005864 G3 box; other site 349106005865 Switch II region; other site 349106005866 G4 box; other site 349106005867 G5 box; other site 349106005868 LrgA family; Region: LrgA; cl00608 349106005869 LrgB-like family; Region: LrgB; cl00596 349106005870 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 349106005871 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349106005872 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 349106005873 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106005874 catalytic residue [active] 349106005875 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 349106005876 malate dehydrogenase; Provisional; Region: PRK05442 349106005877 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 349106005878 NAD(P) binding site [chemical binding]; other site 349106005879 dimer interface [polypeptide binding]; other site 349106005880 malate binding site [chemical binding]; other site 349106005881 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 349106005882 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 349106005883 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106005884 catalytic residue [active] 349106005885 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 349106005886 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349106005887 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 349106005888 FeS/SAM binding site; other site 349106005889 TRAM domain; Region: TRAM; cl01282 349106005890 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 349106005891 acetylornithine deacetylase; Provisional; Region: PRK07522 349106005892 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 349106005893 metal binding site [ion binding]; metal-binding site 349106005894 putative dimer interface [polypeptide binding]; other site 349106005895 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 349106005896 Cell division protein ZapA; Region: ZapA; pfam05164 349106005897 NAD synthetase; Provisional; Region: PRK13981 349106005898 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 349106005899 multimer interface [polypeptide binding]; other site 349106005900 active site 349106005901 catalytic triad [active] 349106005902 protein interface 1 [polypeptide binding]; other site 349106005903 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 349106005904 homodimer interface [polypeptide binding]; other site 349106005905 NAD binding pocket [chemical binding]; other site 349106005906 ATP binding pocket [chemical binding]; other site 349106005907 Mg binding site [ion binding]; other site 349106005908 active-site loop [active] 349106005909 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 349106005910 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106005911 catalytic residue [active] 349106005912 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 349106005913 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 349106005914 Walker A motif; other site 349106005915 ATP binding site [chemical binding]; other site 349106005916 Walker B motif; other site 349106005917 ferric uptake regulator; Provisional; Region: fur; PRK09462 349106005918 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349106005919 metal binding site 2 [ion binding]; metal-binding site 349106005920 putative DNA binding helix; other site 349106005921 metal binding site 1 [ion binding]; metal-binding site 349106005922 dimer interface [polypeptide binding]; other site 349106005923 structural Zn2+ binding site [ion binding]; other site 349106005924 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 349106005925 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 349106005926 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 349106005927 Cytochrome c553 [Energy production and conversion]; Region: COG2863 349106005928 Cytochrome c; Region: Cytochrom_C; cl11414 349106005929 Cytochrome c; Region: Cytochrom_C; cl11414 349106005930 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 349106005931 G1 box; other site 349106005932 GTP/Mg2+ binding site [chemical binding]; other site 349106005933 Switch I region; other site 349106005934 G2 box; other site 349106005935 G3 box; other site 349106005936 Switch II region; other site 349106005937 G4 box; other site 349106005938 G5 box; other site 349106005939 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 349106005940 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106005941 active site 349106005942 HIGH motif; other site 349106005943 nucleotide binding site [chemical binding]; other site 349106005944 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 349106005945 active site 349106005946 KMSKS motif; other site 349106005947 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 349106005948 tRNA binding surface [nucleotide binding]; other site 349106005949 anticodon binding site; other site 349106005950 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 349106005951 lipoprotein signal peptidase; Provisional; Region: PRK14785 349106005952 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 349106005953 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 349106005954 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349106005955 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 349106005956 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 349106005957 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 349106005958 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 349106005959 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 349106005960 Trp docking motif [polypeptide binding]; other site 349106005961 active site 349106005962 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 349106005963 binding surface 349106005964 TPR motif; other site 349106005965 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 349106005966 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 349106005967 dimer interface [polypeptide binding]; other site 349106005968 motif 1; other site 349106005969 active site 349106005970 motif 2; other site 349106005971 motif 3; other site 349106005972 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 349106005973 anticodon binding site; other site 349106005974 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 349106005975 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349106005976 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349106005977 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 349106005978 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 349106005979 non-specific DNA binding site [nucleotide binding]; other site 349106005980 salt bridge; other site 349106005981 sequence-specific DNA binding site [nucleotide binding]; other site 349106005982 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 349106005983 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 349106005984 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 349106005985 binding surface 349106005986 TPR motif; other site 349106005987 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 349106005988 TPR motif; other site 349106005989 binding surface 349106005990 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 349106005991 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 349106005992 FeS/SAM binding site; other site 349106005993 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 349106005994 active site 349106005995 multimer interface [polypeptide binding]; other site 349106005996 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 349106005997 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 349106005998 active site 349106005999 FMN binding site [chemical binding]; other site 349106006000 substrate binding site [chemical binding]; other site 349106006001 3Fe-4S cluster binding site [ion binding]; other site 349106006002 Predicted periplasmic protein [Function unknown]; Region: COG3698 349106006003 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349106006004 GTP-binding protein YchF; Reviewed; Region: PRK09601 349106006005 YchF GTPase; Region: YchF; cd01900 349106006006 G1 box; other site 349106006007 GTP/Mg2+ binding site [chemical binding]; other site 349106006008 Switch I region; other site 349106006009 G2 box; other site 349106006010 Switch II region; other site 349106006011 G3 box; other site 349106006012 G4 box; other site 349106006013 G5 box; other site 349106006014 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 349106006015 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 349106006016 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 349106006017 Zn2+ binding site [ion binding]; other site 349106006018 Mg2+ binding site [ion binding]; other site 349106006019 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 349106006020 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106006021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106006022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 349106006023 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 349106006024 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349106006025 active site 349106006026 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 349106006027 homodimer interaction site [polypeptide binding]; other site 349106006028 cofactor binding site; other site 349106006029 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 349106006030 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 349106006031 FAD binding pocket [chemical binding]; other site 349106006032 FAD binding motif [chemical binding]; other site 349106006033 phosphate binding motif [ion binding]; other site 349106006034 beta-alpha-beta structure motif; other site 349106006035 NAD binding pocket [chemical binding]; other site 349106006036 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106006037 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106006038 Probable transposase; Region: OrfB_IS605; pfam01385 349106006039 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106006040 BCCT family transporter; Region: BCCT; cl00569 349106006041 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 349106006042 PLD-like domain; Region: PLDc_2; pfam13091 349106006043 putative homodimer interface [polypeptide binding]; other site 349106006044 putative active site [active] 349106006045 catalytic site [active] 349106006046 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349106006047 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 349106006048 ATP binding site [chemical binding]; other site 349106006049 putative Mg++ binding site [ion binding]; other site 349106006050 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 349106006051 nucleotide binding region [chemical binding]; other site 349106006052 ATP-binding site [chemical binding]; other site 349106006053 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 349106006054 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 349106006055 active site 349106006056 8-oxo-dGMP binding site [chemical binding]; other site 349106006057 nudix motif; other site 349106006058 metal binding site [ion binding]; metal-binding site 349106006059 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 349106006060 Predicted membrane protein [Function unknown]; Region: COG3212 349106006061 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 349106006062 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 349106006063 active site 349106006064 DNA polymerase IV; Validated; Region: PRK02406 349106006065 DNA binding site [nucleotide binding] 349106006066 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 349106006067 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 349106006068 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 349106006069 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 349106006070 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 349106006071 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 349106006072 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 349106006073 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 349106006074 active site 349106006075 homodimer interface [polypeptide binding]; other site 349106006076 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 349106006077 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 349106006078 dimerization interface 3.5A [polypeptide binding]; other site 349106006079 active site 349106006080 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 349106006081 rRNA binding site [nucleotide binding]; other site 349106006082 predicted 30S ribosome binding site; other site 349106006083 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349106006084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349106006085 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349106006086 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 349106006087 tartrate dehydrogenase; Region: TTC; TIGR02089 349106006088 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 349106006089 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 349106006090 substrate binding site [chemical binding]; other site 349106006091 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 349106006092 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 349106006093 substrate binding site [chemical binding]; other site 349106006094 ligand binding site [chemical binding]; other site 349106006095 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106006096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106006097 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 349106006098 dimerization interface [polypeptide binding]; other site 349106006099 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106006100 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106006101 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 349106006102 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 349106006103 Na binding site [ion binding]; other site 349106006104 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 349106006105 TPR motif; other site 349106006106 Tetratricopeptide repeat; Region: TPR_16; pfam13432 349106006107 binding surface 349106006108 Protein of unknown function (DUF560); Region: DUF560; pfam04575 349106006109 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006110 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006111 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006112 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006113 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006114 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006115 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006116 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006117 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 349106006118 basic region leucin zipper; Region: BRLZ; smart00338 349106006119 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006120 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106006121 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; cd00569 349106006122 DNA-binding interface [nucleotide binding]; DNA binding site 349106006123 Integrase core domain; Region: rve; pfam00665 349106006124 Integrase core domain; Region: rve_3; pfam13683 349106006125 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 349106006126 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 349106006127 SlyX; Region: SlyX; pfam04102 349106006128 ABC transporter ATPase component; Reviewed; Region: PRK11147 349106006129 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 349106006130 Walker A/P-loop; other site 349106006131 ATP binding site [chemical binding]; other site 349106006132 Q-loop/lid; other site 349106006133 ABC transporter signature motif; other site 349106006134 Walker B; other site 349106006135 D-loop; other site 349106006136 H-loop/switch region; other site 349106006137 ABC transporter; Region: ABC_tran_2; pfam12848 349106006138 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349106006139 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 349106006140 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 349106006141 putative acyl-acceptor binding pocket; other site 349106006142 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 349106006143 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 349106006144 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 349106006145 active site 349106006146 HIGH motif; other site 349106006147 dimer interface [polypeptide binding]; other site 349106006148 KMSKS motif; other site 349106006149 ScpA/B protein; Region: ScpA_ScpB; cl00598 349106006150 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 349106006151 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106006152 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349106006153 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 349106006154 RNA binding surface [nucleotide binding]; other site 349106006155 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 349106006156 probable active site [active] 349106006157 Lysine efflux permease [General function prediction only]; Region: COG1279 349106006158 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 349106006159 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 349106006160 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 349106006161 dimerization interface [polypeptide binding]; other site 349106006162 active site 349106006163 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 349106006164 quinolinate synthetase; Provisional; Region: PRK09375 349106006165 L-aspartate oxidase; Provisional; Region: PRK06175 349106006166 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 349106006167 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349106006168 Predicted membrane protein [Function unknown]; Region: COG2431 349106006169 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 349106006170 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106006171 ligand binding site [chemical binding]; other site 349106006172 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 349106006173 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 349106006174 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 349106006175 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 349106006176 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 349106006177 PhoH-like protein; Region: PhoH; pfam02562 349106006178 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 349106006179 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349106006180 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 349106006181 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106006182 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349106006183 fumarate hydratase; Reviewed; Region: fumC; PRK00485 349106006184 Class II fumarases; Region: Fumarase_classII; cd01362 349106006185 active site 349106006186 tetramer interface [polypeptide binding]; other site 349106006187 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 349106006188 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 349106006189 Predicted permease [General function prediction only]; Region: COG2056 349106006190 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 349106006191 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 349106006192 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 349106006193 Found in ATP-dependent protease La (LON); Region: LON; smart00464 349106006194 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 349106006195 Walker A motif; other site 349106006196 ATP binding site [chemical binding]; other site 349106006197 Walker B motif; other site 349106006198 arginine finger; other site 349106006199 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 349106006200 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 349106006201 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 349106006202 E-class dimer interface [polypeptide binding]; other site 349106006203 P-class dimer interface [polypeptide binding]; other site 349106006204 active site 349106006205 Cu2+ binding site [ion binding]; other site 349106006206 Zn2+ binding site [ion binding]; other site 349106006207 recombinase A; Provisional; Region: recA; PRK09354 349106006208 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 349106006209 hexamer interface [polypeptide binding]; other site 349106006210 Walker A motif; other site 349106006211 ATP binding site [chemical binding]; other site 349106006212 Walker B motif; other site 349106006213 recombination regulator RecX; Reviewed; Region: recX; PRK00117 349106006214 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 349106006215 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106006216 Coenzyme A binding pocket [chemical binding]; other site 349106006217 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 349106006218 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 349106006219 Permutation of conserved domain; other site 349106006220 active site 349106006221 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 349106006222 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 349106006223 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 349106006224 active site 349106006225 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 349106006226 Intracellular septation protein A; Region: IspA; pfam04279 349106006227 YciI-like protein; Reviewed; Region: PRK11370 349106006228 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 349106006229 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 349106006230 Uncharacterized conserved protein [Function unknown]; Region: COG4121 349106006231 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349106006232 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106006233 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 349106006234 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 349106006235 putative ATP binding site [chemical binding]; other site 349106006236 putative substrate interface [chemical binding]; other site 349106006237 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349106006238 active site 349106006239 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 349106006240 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 349106006241 dimer interface [polypeptide binding]; other site 349106006242 ssDNA binding site [nucleotide binding]; other site 349106006243 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349106006244 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 349106006245 Major Facilitator Superfamily; Region: MFS_1; pfam07690 349106006246 putative substrate translocation pore; other site 349106006247 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 349106006248 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 349106006249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106006250 ABC transporter signature motif; other site 349106006251 Walker B; other site 349106006252 D-loop; other site 349106006253 H-loop/switch region; other site 349106006254 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 349106006255 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 349106006256 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 349106006257 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 349106006258 Protein of unknown function (DUF503); Region: DUF503; pfam04456 349106006259 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 349106006260 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349106006261 substrate binding pocket [chemical binding]; other site 349106006262 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 349106006263 dimer interface [polypeptide binding]; other site 349106006264 FMN binding site [chemical binding]; other site 349106006265 Domain of unknown function (DUF368); Region: DUF368; pfam04018 349106006266 Uncharacterized conserved protein [Function unknown]; Region: COG2966 349106006267 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 349106006268 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 349106006269 glutathione reductase; Validated; Region: PRK06116 349106006270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106006271 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106006272 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106006273 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 349106006274 SmpB-tmRNA interface; other site 349106006275 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 349106006276 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 349106006277 active site 349106006278 (T/H)XGH motif; other site 349106006279 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 349106006280 hypothetical protein; Provisional; Region: PRK01254 349106006281 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 349106006282 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 349106006283 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 349106006284 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 349106006285 dimerization domain [polypeptide binding]; other site 349106006286 dimer interface [polypeptide binding]; other site 349106006287 catalytic residues [active] 349106006288 homoserine dehydrogenase; Provisional; Region: PRK06349 349106006289 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 349106006290 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 349106006291 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 349106006292 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 349106006293 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 349106006294 dimer interface [polypeptide binding]; other site 349106006295 active site 349106006296 PRC-barrel domain; Region: PRC; pfam05239 349106006297 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 349106006298 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 349106006299 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106006300 Probable transposase; Region: OrfB_IS605; pfam01385 349106006301 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106006302 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 349106006303 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 349106006304 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 349106006305 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 349106006306 nucleotide binding region [chemical binding]; other site 349106006307 ATP-binding site [chemical binding]; other site 349106006308 SEC-C motif; Region: SEC-C; pfam02810 349106006309 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 349106006310 MutS domain I; Region: MutS_I; pfam01624 349106006311 MutS domain II; Region: MutS_II; pfam05188 349106006312 MutS domain III; Region: MutS_III; pfam05192 349106006313 MutS domain V; Region: MutS_V; pfam00488 349106006314 Walker A/P-loop; other site 349106006315 ATP binding site [chemical binding]; other site 349106006316 Q-loop/lid; other site 349106006317 ABC transporter signature motif; other site 349106006318 Walker B; other site 349106006319 D-loop; other site 349106006320 H-loop/switch region; other site 349106006321 Ferredoxin [Energy production and conversion]; Region: COG1146 349106006322 4Fe-4S binding domain; Region: Fer4; cl02805 349106006323 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 349106006324 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 349106006325 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 349106006326 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 349106006327 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 349106006328 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 349106006329 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 349106006330 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 349106006331 dimerization interface [polypeptide binding]; other site 349106006332 substrate binding site [chemical binding]; other site 349106006333 active site 349106006334 calcium binding site [ion binding]; other site 349106006335 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 349106006336 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 349106006337 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 349106006338 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106006339 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 349106006340 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 349106006341 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 349106006342 active site 2 [active] 349106006343 active site 1 [active] 349106006344 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 349106006345 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 349106006346 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 349106006347 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 349106006348 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 349106006349 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 349106006350 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 349106006351 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 349106006352 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 349106006353 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 349106006354 DNA binding site [nucleotide binding] 349106006355 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 349106006356 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 349106006357 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 349106006358 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 349106006359 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 349106006360 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 349106006361 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 349106006362 RPB3 interaction site [polypeptide binding]; other site 349106006363 RPB1 interaction site [polypeptide binding]; other site 349106006364 RPB11 interaction site [polypeptide binding]; other site 349106006365 RPB10 interaction site [polypeptide binding]; other site 349106006366 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 349106006367 peripheral dimer interface [polypeptide binding]; other site 349106006368 core dimer interface [polypeptide binding]; other site 349106006369 L10 interface [polypeptide binding]; other site 349106006370 L11 interface [polypeptide binding]; other site 349106006371 putative EF-Tu interaction site [polypeptide binding]; other site 349106006372 putative EF-G interaction site [polypeptide binding]; other site 349106006373 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 349106006374 23S rRNA interface [nucleotide binding]; other site 349106006375 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 349106006376 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 349106006377 mRNA/rRNA interface [nucleotide binding]; other site 349106006378 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 349106006379 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 349106006380 23S rRNA interface [nucleotide binding]; other site 349106006381 L7/L12 interface [polypeptide binding]; other site 349106006382 putative thiostrepton binding site; other site 349106006383 L25 interface [polypeptide binding]; other site 349106006384 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 349106006385 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 349106006386 putative homodimer interface [polypeptide binding]; other site 349106006387 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 349106006388 heterodimer interface [polypeptide binding]; other site 349106006389 homodimer interface [polypeptide binding]; other site 349106006390 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 349106006391 elongation factor Tu; Reviewed; Region: PRK00049 349106006392 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349106006393 G1 box; other site 349106006394 GEF interaction site [polypeptide binding]; other site 349106006395 GTP/Mg2+ binding site [chemical binding]; other site 349106006396 Switch I region; other site 349106006397 G2 box; other site 349106006398 G3 box; other site 349106006399 Switch II region; other site 349106006400 G4 box; other site 349106006401 G5 box; other site 349106006402 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 349106006403 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 349106006404 Antibiotic Binding Site [chemical binding]; other site 349106006405 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 349106006406 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 349106006407 phosphopeptide binding site; other site 349106006408 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 349106006409 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 349106006410 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 349106006411 G1 box; other site 349106006412 putative GEF interaction site [polypeptide binding]; other site 349106006413 GTP/Mg2+ binding site [chemical binding]; other site 349106006414 Switch I region; other site 349106006415 G2 box; other site 349106006416 G3 box; other site 349106006417 Switch II region; other site 349106006418 G4 box; other site 349106006419 G5 box; other site 349106006420 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 349106006421 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 349106006422 DNA polymerase I; Provisional; Region: PRK05755 349106006423 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 349106006424 active site 349106006425 metal binding site 1 [ion binding]; metal-binding site 349106006426 putative 5' ssDNA interaction site; other site 349106006427 metal binding site 3; metal-binding site 349106006428 metal binding site 2 [ion binding]; metal-binding site 349106006429 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 349106006430 putative DNA binding site [nucleotide binding]; other site 349106006431 putative metal binding site [ion binding]; other site 349106006432 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 349106006433 active site 349106006434 catalytic site [active] 349106006435 substrate binding site [chemical binding]; other site 349106006436 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 349106006437 active site 349106006438 DNA binding site [nucleotide binding] 349106006439 catalytic site [active] 349106006440 Transposase, Mutator family; Region: Transposase_mut; pfam00872 349106006441 MULE transposase domain; Region: MULE; pfam10551 349106006442 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 349106006443 putative heme binding pocket [chemical binding]; other site 349106006444 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 349106006445 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 349106006446 Fatty acid desaturase; Region: FA_desaturase; pfam00487 349106006447 Di-iron ligands [ion binding]; other site 349106006448 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 349106006449 ferroxidase diiron center [ion binding]; other site 349106006450 Ferritin-like domain; Region: Ferritin; pfam00210 349106006451 ferrochelatase; Reviewed; Region: hemH; PRK00035 349106006452 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 349106006453 C-terminal domain interface [polypeptide binding]; other site 349106006454 active site 349106006455 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 349106006456 active site 349106006457 N-terminal domain interface [polypeptide binding]; other site 349106006458 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 349106006459 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 349106006460 Methyltransferase domain; Region: Methyltransf_23; pfam13489 349106006461 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 349106006462 S-adenosylmethionine binding site [chemical binding]; other site 349106006463 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 349106006464 Sel1-like repeats; Region: SEL1; smart00671 349106006465 Sel1-like repeats; Region: SEL1; smart00671 349106006466 Rubredoxin [Energy production and conversion]; Region: COG1773 349106006467 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 349106006468 iron binding site [ion binding]; other site 349106006469 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 349106006470 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349106006471 isovaleryl-CoA dehydrogenase; Region: PLN02519 349106006472 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 349106006473 substrate binding site [chemical binding]; other site 349106006474 FAD binding site [chemical binding]; other site 349106006475 catalytic base [active] 349106006476 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 349106006477 active site 349106006478 catalytic residues [active] 349106006479 metal binding site [ion binding]; metal-binding site 349106006480 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 349106006481 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106006482 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 349106006483 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 349106006484 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 349106006485 carboxyltransferase (CT) interaction site; other site 349106006486 biotinylation site [posttranslational modification]; other site 349106006487 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 349106006488 enoyl-CoA hydratase; Provisional; Region: PRK05995 349106006489 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 349106006490 substrate binding site [chemical binding]; other site 349106006491 oxyanion hole (OAH) forming residues; other site 349106006492 trimer interface [polypeptide binding]; other site 349106006493 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 349106006494 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 349106006495 AMP-binding domain protein; Validated; Region: PRK08315 349106006496 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 349106006497 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 349106006498 acyl-activating enzyme (AAE) consensus motif; other site 349106006499 putative AMP binding site [chemical binding]; other site 349106006500 putative active site [active] 349106006501 acyl-activating enzyme (AAE) consensus motif; other site 349106006502 putative CoA binding site [chemical binding]; other site 349106006503 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 349106006504 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 349106006505 dimerization interface [polypeptide binding]; other site 349106006506 domain crossover interface; other site 349106006507 redox-dependent activation switch; other site 349106006508 PGAP1-like protein; Region: PGAP1; pfam07819 349106006509 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 349106006510 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106006511 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 349106006512 dimer interface [polypeptide binding]; other site 349106006513 conserved gate region; other site 349106006514 putative PBP binding loops; other site 349106006515 ABC-ATPase subunit interface; other site 349106006516 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106006517 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 349106006518 dimer interface [polypeptide binding]; other site 349106006519 conserved gate region; other site 349106006520 putative PBP binding loops; other site 349106006521 ABC-ATPase subunit interface; other site 349106006522 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 349106006523 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106006524 substrate binding pocket [chemical binding]; other site 349106006525 membrane-bound complex binding site; other site 349106006526 hinge residues; other site 349106006527 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106006528 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 349106006529 substrate binding pocket [chemical binding]; other site 349106006530 membrane-bound complex binding site; other site 349106006531 hinge residues; other site 349106006532 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106006533 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 349106006534 substrate binding pocket [chemical binding]; other site 349106006535 membrane-bound complex binding site; other site 349106006536 hinge residues; other site 349106006537 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 349106006538 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106006539 Walker A/P-loop; other site 349106006540 ATP binding site [chemical binding]; other site 349106006541 Q-loop/lid; other site 349106006542 ABC transporter signature motif; other site 349106006543 Walker B; other site 349106006544 D-loop; other site 349106006545 H-loop/switch region; other site 349106006546 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 349106006547 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 349106006548 putative catalytic cysteine [active] 349106006549 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 349106006550 oligoendopeptidase F; Region: pepF; TIGR00181 349106006551 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 349106006552 active site 349106006553 Zn binding site [ion binding]; other site 349106006554 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 349106006555 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 349106006556 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 349106006557 dimer interface [polypeptide binding]; other site 349106006558 active site 349106006559 glycine-pyridoxal phosphate binding site [chemical binding]; other site 349106006560 folate binding site [chemical binding]; other site 349106006561 Chorismate lyase; Region: Chor_lyase; cl01230 349106006562 Protein of unknown function, DUF482; Region: DUF482; pfam04339 349106006563 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 349106006564 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 349106006565 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 349106006566 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 349106006567 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 349106006568 Ion channel; Region: Ion_trans_2; pfam07885 349106006569 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 349106006570 pseudouridine synthase; Region: TIGR00093 349106006571 active site 349106006572 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 349106006573 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 349106006574 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 349106006575 protein binding site [polypeptide binding]; other site 349106006576 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 349106006577 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 349106006578 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349106006579 PAS domain; Region: PAS; smart00091 349106006580 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 349106006581 dimer interface [polypeptide binding]; other site 349106006582 phosphorylation site [posttranslational modification] 349106006583 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 349106006584 ATP binding site [chemical binding]; other site 349106006585 Mg2+ binding site [ion binding]; other site 349106006586 G-X-G motif; other site 349106006587 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 349106006588 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 349106006589 active site 349106006590 phosphorylation site [posttranslational modification] 349106006591 intermolecular recognition site; other site 349106006592 dimerization interface [polypeptide binding]; other site 349106006593 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 349106006594 DNA binding site [nucleotide binding] 349106006595 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 349106006596 putative active site [active] 349106006597 dimerization interface [polypeptide binding]; other site 349106006598 putative tRNAtyr binding site [nucleotide binding]; other site 349106006599 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 349106006600 HD domain; Region: HD_3; pfam13023 349106006601 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 349106006602 catalytic triad [active] 349106006603 Isochorismatase family; Region: Isochorismatase; pfam00857 349106006604 conserved cis-peptide bond; other site 349106006605 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 349106006606 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 349106006607 dimer interface [polypeptide binding]; other site 349106006608 active site 349106006609 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 349106006610 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 349106006611 substrate binding site [chemical binding]; other site 349106006612 oxyanion hole (OAH) forming residues; other site 349106006613 trimer interface [polypeptide binding]; other site 349106006614 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 349106006615 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349106006616 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349106006617 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349106006618 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349106006619 substrate binding pocket [chemical binding]; other site 349106006620 chain length determination region; other site 349106006621 substrate-Mg2+ binding site; other site 349106006622 catalytic residues [active] 349106006623 aspartate-rich region 1; other site 349106006624 active site lid residues [active] 349106006625 aspartate-rich region 2; other site 349106006626 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 349106006627 TPR motif; other site 349106006628 binding surface 349106006629 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 349106006630 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 349106006631 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 349106006632 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 349106006633 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 349106006634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106006635 active site 349106006636 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 349106006637 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 349106006638 5S rRNA interface [nucleotide binding]; other site 349106006639 CTC domain interface [polypeptide binding]; other site 349106006640 L16 interface [polypeptide binding]; other site 349106006641 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 349106006642 putative active site [active] 349106006643 catalytic residue [active] 349106006644 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 349106006645 tetramerization interface [polypeptide binding]; other site 349106006646 active site 349106006647 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 349106006648 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349106006649 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349106006650 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 349106006651 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 349106006652 active site 349106006653 FMN binding site [chemical binding]; other site 349106006654 2,4-decadienoyl-CoA binding site; other site 349106006655 catalytic residue [active] 349106006656 4Fe-4S cluster binding site [ion binding]; other site 349106006657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106006658 acyl-CoA synthetase; Validated; Region: PRK08162 349106006659 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 349106006660 acyl-activating enzyme (AAE) consensus motif; other site 349106006661 putative active site [active] 349106006662 AMP binding site [chemical binding]; other site 349106006663 putative CoA binding site [chemical binding]; other site 349106006664 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 349106006665 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106006666 catalytic residue [active] 349106006667 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349106006668 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349106006669 heme binding site [chemical binding]; other site 349106006670 ferroxidase pore; other site 349106006671 ferroxidase diiron center [ion binding]; other site 349106006672 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349106006673 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349106006674 heme binding site [chemical binding]; other site 349106006675 ferroxidase pore; other site 349106006676 ferroxidase diiron center [ion binding]; other site 349106006677 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 349106006678 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 349106006679 catalytic residues [active] 349106006680 hinge region; other site 349106006681 alpha helical domain; other site 349106006682 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 349106006683 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 349106006684 S-adenosylmethionine binding site [chemical binding]; other site 349106006685 phosphoglycolate phosphatase; Provisional; Region: PRK13222 349106006686 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 349106006687 motif II; other site 349106006688 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 349106006689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006690 NAD(P) binding site [chemical binding]; other site 349106006691 active site 349106006692 hypothetical protein; Provisional; Region: PRK11019 349106006693 osmolarity response regulator; Provisional; Region: ompR; PRK09468 349106006694 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 349106006695 active site 349106006696 phosphorylation site [posttranslational modification] 349106006697 intermolecular recognition site; other site 349106006698 dimerization interface [polypeptide binding]; other site 349106006699 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 349106006700 DNA binding site [nucleotide binding] 349106006701 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 349106006702 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 349106006703 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 349106006704 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 349106006705 RNA binding site [nucleotide binding]; other site 349106006706 Uncharacterized conserved protein [Function unknown]; Region: COG3268 349106006707 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 349106006708 dihydrodipicolinate synthase; Region: dapA; TIGR00674 349106006709 dimer interface [polypeptide binding]; other site 349106006710 active site 349106006711 catalytic residue [active] 349106006712 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 349106006713 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 349106006714 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 349106006715 ATP binding site [chemical binding]; other site 349106006716 active site 349106006717 substrate binding site [chemical binding]; other site 349106006718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 349106006719 Protein of unknown function (DUF615); Region: DUF615; pfam04751 349106006720 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 349106006721 Pantoate-beta-alanine ligase; Region: PanC; cd00560 349106006722 pantoate--beta-alanine ligase; Region: panC; TIGR00018 349106006723 active site 349106006724 ATP-binding site [chemical binding]; other site 349106006725 pantoate-binding site; other site 349106006726 HXXH motif; other site 349106006727 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 349106006728 oligomerization interface [polypeptide binding]; other site 349106006729 active site 349106006730 metal binding site [ion binding]; metal-binding site 349106006731 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 349106006732 catalytic center binding site [active] 349106006733 ATP binding site [chemical binding]; other site 349106006734 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 349106006735 poly(A) polymerase; Region: pcnB; TIGR01942 349106006736 active site 349106006737 NTP binding site [chemical binding]; other site 349106006738 metal binding triad [ion binding]; metal-binding site 349106006739 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349106006740 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 349106006741 Rhomboid family; Region: Rhomboid; cl11446 349106006742 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 349106006743 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 349106006744 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 349106006745 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 349106006746 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 349106006747 active site 349106006748 dimer interface [polypeptide binding]; other site 349106006749 motif 1; other site 349106006750 motif 2; other site 349106006751 motif 3; other site 349106006752 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 349106006753 anticodon binding site; other site 349106006754 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 349106006755 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 349106006756 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 349106006757 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 349106006758 peroxiredoxin; Region: AhpC; TIGR03137 349106006759 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 349106006760 dimer interface [polypeptide binding]; other site 349106006761 decamer (pentamer of dimers) interface [polypeptide binding]; other site 349106006762 catalytic triad [active] 349106006763 peroxidatic and resolving cysteines [active] 349106006764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106006765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106006766 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 349106006767 dimerization interface [polypeptide binding]; other site 349106006768 Protein of unknown function DUF45; Region: DUF45; pfam01863 349106006769 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 349106006770 Imelysin; Region: Peptidase_M75; pfam09375 349106006771 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 349106006772 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 349106006773 Imelysin; Region: Peptidase_M75; cl09159 349106006774 putative outer membrane lipoprotein; Provisional; Region: PRK10510 349106006775 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106006776 ligand binding site [chemical binding]; other site 349106006777 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 349106006778 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349106006779 putative acyl-acceptor binding pocket; other site 349106006780 septum formation inhibitor; Provisional; Region: minC; PRK00030 349106006781 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 349106006782 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 349106006783 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 349106006784 Switch I; other site 349106006785 Switch II; other site 349106006786 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 349106006787 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 349106006788 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 349106006789 putative binding surface; other site 349106006790 active site 349106006791 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349106006792 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 349106006793 putative binding surface; other site 349106006794 active site 349106006795 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 349106006796 ATP binding site [chemical binding]; other site 349106006797 Mg2+ binding site [ion binding]; other site 349106006798 G-X-G motif; other site 349106006799 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 349106006800 Response regulator receiver domain; Region: Response_reg; pfam00072 349106006801 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 349106006802 active site 349106006803 phosphorylation site [posttranslational modification] 349106006804 intermolecular recognition site; other site 349106006805 dimerization interface [polypeptide binding]; other site 349106006806 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349106006807 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349106006808 dimer interface [polypeptide binding]; other site 349106006809 putative CheW interface [polypeptide binding]; other site 349106006810 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 349106006811 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 349106006812 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 349106006813 active site 349106006814 phosphorylation site [posttranslational modification] 349106006815 intermolecular recognition site; other site 349106006816 dimerization interface [polypeptide binding]; other site 349106006817 Response regulator receiver domain; Region: Response_reg; pfam00072 349106006818 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 349106006819 active site 349106006820 phosphorylation site [posttranslational modification] 349106006821 intermolecular recognition site; other site 349106006822 dimerization interface [polypeptide binding]; other site 349106006823 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349106006824 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 349106006825 active site 349106006826 phosphorylation site [posttranslational modification] 349106006827 intermolecular recognition site; other site 349106006828 dimerization interface [polypeptide binding]; other site 349106006829 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 349106006830 DNA binding site [nucleotide binding] 349106006831 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 349106006832 dimerization interface [polypeptide binding]; other site 349106006833 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 349106006834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349106006835 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 349106006836 ATP binding site [chemical binding]; other site 349106006837 G-X-G motif; other site 349106006838 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 349106006839 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 349106006840 putative active site [active] 349106006841 Zn binding site [ion binding]; other site 349106006842 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 349106006843 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 349106006844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106006845 Walker A/P-loop; other site 349106006846 ATP binding site [chemical binding]; other site 349106006847 Q-loop/lid; other site 349106006848 ABC transporter signature motif; other site 349106006849 Walker B; other site 349106006850 D-loop; other site 349106006851 H-loop/switch region; other site 349106006852 heme exporter protein CcmB; Region: ccmB; TIGR01190 349106006853 heme exporter protein CcmC; Region: ccmC; TIGR01191 349106006854 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 349106006855 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 349106006856 Predicted integral membrane protein [Function unknown]; Region: COG0392 349106006857 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 349106006858 DNA-binding site [nucleotide binding]; DNA binding site 349106006859 RNA-binding motif; other site 349106006860 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 349106006861 Ligand Binding Site [chemical binding]; other site 349106006862 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 349106006863 ornithine cyclodeaminase; Validated; Region: PRK08618 349106006864 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 349106006865 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 349106006866 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 349106006867 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 349106006868 POT family; Region: PTR2; cl17359 349106006869 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 349106006870 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 349106006871 HIGH motif; other site 349106006872 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349106006873 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 349106006874 active site 349106006875 KMSKS motif; other site 349106006876 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 349106006877 tRNA binding surface [nucleotide binding]; other site 349106006878 anticodon binding site; other site 349106006879 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 349106006880 Uncharacterized conserved protein [Function unknown]; Region: COG0393 349106006881 hypothetical protein; Provisional; Region: PRK00967 349106006882 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 349106006883 phosphoserine phosphatase SerB; Region: serB; TIGR00338 349106006884 Acid Phosphatase; Region: Acid_PPase; cl17256 349106006885 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 349106006886 motif II; other site 349106006887 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 349106006888 biotin synthase; Region: bioB; TIGR00433 349106006889 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 349106006890 FeS/SAM binding site; other site 349106006891 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 349106006892 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 349106006893 amidase; Provisional; Region: PRK06170 349106006894 ribonuclease PH; Reviewed; Region: rph; PRK00173 349106006895 Ribonuclease PH; Region: RNase_PH_bact; cd11362 349106006896 hexamer interface [polypeptide binding]; other site 349106006897 active site 349106006898 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 349106006899 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 349106006900 acyl-activating enzyme (AAE) consensus motif; other site 349106006901 putative AMP binding site [chemical binding]; other site 349106006902 putative active site [active] 349106006903 putative CoA binding site [chemical binding]; other site 349106006904 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 349106006905 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 349106006906 acyl-activating enzyme (AAE) consensus motif; other site 349106006907 putative AMP binding site [chemical binding]; other site 349106006908 putative active site [active] 349106006909 putative CoA binding site [chemical binding]; other site 349106006910 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 349106006911 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 349106006912 CAP-like domain; other site 349106006913 active site 349106006914 primary dimer interface [polypeptide binding]; other site 349106006915 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106006916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 349106006917 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 349106006918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349106006919 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 349106006920 Hemerythrin-like domain; Region: Hr-like; cd12108 349106006921 Fe binding site [ion binding]; other site 349106006922 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 349106006923 AbgT putative transporter family; Region: ABG_transport; pfam03806 349106006924 Predicted membrane protein [Function unknown]; Region: COG1289 349106006925 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 349106006926 Predicted membrane protein [Function unknown]; Region: COG2323 349106006927 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 349106006928 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 349106006929 active site 349106006930 metal binding site [ion binding]; metal-binding site 349106006931 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 349106006932 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 349106006933 ATP-grasp domain; Region: ATP-grasp; pfam02222 349106006934 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 349106006935 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 349106006936 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 349106006937 motif 1; other site 349106006938 dimer interface [polypeptide binding]; other site 349106006939 active site 349106006940 motif 2; other site 349106006941 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 349106006942 active site 349106006943 motif 3; other site 349106006944 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 349106006945 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 349106006946 ligand binding site [chemical binding]; other site 349106006947 NAD binding site [chemical binding]; other site 349106006948 catalytic site [active] 349106006949 homodimer interface [polypeptide binding]; other site 349106006950 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349106006951 Domain of unknown function DUF20; Region: UPF0118; pfam01594 349106006952 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 349106006953 DALR anticodon binding domain; Region: DALR_1; pfam05746 349106006954 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 349106006955 dimer interface [polypeptide binding]; other site 349106006956 motif 1; other site 349106006957 active site 349106006958 motif 2; other site 349106006959 motif 3; other site 349106006960 PspC domain; Region: PspC; pfam04024 349106006961 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 349106006962 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106006963 active site 349106006964 nucleotide binding site [chemical binding]; other site 349106006965 HIGH motif; other site 349106006966 KMSKS motif; other site 349106006967 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 349106006968 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 349106006969 heat shock protein HtpX; Provisional; Region: PRK05457 349106006970 Protein of unknown function (DUF962); Region: DUF962; cl01879 349106006971 Uncharacterized conserved protein [Function unknown]; Region: COG2353 349106006972 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 349106006973 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 349106006974 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349106006975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 349106006976 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 349106006977 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 349106006978 active site 349106006979 HIGH motif; other site 349106006980 dimer interface [polypeptide binding]; other site 349106006981 KMSKS motif; other site 349106006982 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 349106006983 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 349106006984 carboxyltransferase (CT) interaction site; other site 349106006985 biotinylation site [posttranslational modification]; other site 349106006986 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 349106006987 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106006988 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 349106006989 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 349106006990 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 349106006991 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 349106006992 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 349106006993 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 349106006994 putative active site [active] 349106006995 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 349106006996 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 349106006997 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 349106006998 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 349106006999 carboxyltransferase (CT) interaction site; other site 349106007000 biotinylation site [posttranslational modification]; other site 349106007001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106007002 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106007003 Probable transposase; Region: OrfB_IS605; pfam01385 349106007004 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106007005 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 349106007006 thioredoxin 2; Provisional; Region: PRK10996 349106007007 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 349106007008 catalytic residues [active] 349106007009 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 349106007010 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 349106007011 Sulfate transporter family; Region: Sulfate_transp; pfam00916 349106007012 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 349106007013 Putative phosphatase (DUF442); Region: DUF442; cl17385 349106007014 Putative phosphatase (DUF442); Region: DUF442; cl17385 349106007015 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 349106007016 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 349106007017 catalytic residue [active] 349106007018 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106007019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106007020 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106007021 Protein of unknown function (DUF465); Region: DUF465; cl01070 349106007022 ribonuclease R; Region: RNase_R; TIGR02063 349106007023 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 349106007024 RNB domain; Region: RNB; pfam00773 349106007025 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 349106007026 RNA binding site [nucleotide binding]; other site 349106007027 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349106007028 putative catalytic site [active] 349106007029 putative metal binding site [ion binding]; other site 349106007030 putative phosphate binding site [ion binding]; other site 349106007031 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 349106007032 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 349106007033 active site 349106007034 Zn binding site [ion binding]; other site 349106007035 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 349106007036 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 349106007037 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 349106007038 Walker A/P-loop; other site 349106007039 ATP binding site [chemical binding]; other site 349106007040 Q-loop/lid; other site 349106007041 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349106007042 ABC transporter signature motif; other site 349106007043 Walker B; other site 349106007044 D-loop; other site 349106007045 ABC transporter; Region: ABC_tran_2; pfam12848 349106007046 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 349106007047 Predicted acetyltransferase [General function prediction only]; Region: COG2388 349106007048 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 349106007049 aromatic arch; other site 349106007050 DCoH dimer interaction site [polypeptide binding]; other site 349106007051 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 349106007052 DCoH tetramer interaction site [polypeptide binding]; other site 349106007053 substrate binding site [chemical binding]; other site 349106007054 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 349106007055 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 349106007056 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 349106007057 Transporter associated domain; Region: CorC_HlyC; smart01091 349106007058 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 349106007059 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 349106007060 nucleophile elbow; other site 349106007061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 349106007062 N-acetylglutamate synthase; Validated; Region: PRK05279 349106007063 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 349106007064 putative feedback inhibition sensing region; other site 349106007065 putative nucleotide binding site [chemical binding]; other site 349106007066 putative substrate binding site [chemical binding]; other site 349106007067 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106007068 Coenzyme A binding pocket [chemical binding]; other site 349106007069 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 349106007070 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 349106007071 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 349106007072 Conserved TM helix; Region: TM_helix; pfam05552 349106007073 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 349106007074 classical (c) SDRs; Region: SDR_c; cd05233 349106007075 NAD(P) binding site [chemical binding]; other site 349106007076 active site 349106007077 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 349106007078 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 349106007079 putative acyl-acceptor binding pocket; other site 349106007080 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 349106007081 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 349106007082 ATP binding site [chemical binding]; other site 349106007083 Mg2+ binding site [ion binding]; other site 349106007084 G-X-G motif; other site 349106007085 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 349106007086 anchoring element; other site 349106007087 dimer interface [polypeptide binding]; other site 349106007088 ATP binding site [chemical binding]; other site 349106007089 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 349106007090 active site 349106007091 metal binding site [ion binding]; metal-binding site 349106007092 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349106007093 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 349106007094 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349106007095 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 349106007096 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 349106007097 putative active site [active] 349106007098 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106007099 active site 349106007100 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 349106007101 active site 349106007102 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 349106007103 active site 349106007104 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 349106007105 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 349106007106 domain interfaces; other site 349106007107 active site 349106007108 argininosuccinate lyase; Provisional; Region: PRK00855 349106007109 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 349106007110 active sites [active] 349106007111 tetramer interface [polypeptide binding]; other site 349106007112 oxidative damage protection protein; Provisional; Region: PRK05408 349106007113 transcriptional regulator PhoU; Provisional; Region: PRK11115 349106007114 PhoU domain; Region: PhoU; pfam01895 349106007115 PhoU domain; Region: PhoU; pfam01895 349106007116 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 349106007117 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 349106007118 Walker A/P-loop; other site 349106007119 ATP binding site [chemical binding]; other site 349106007120 Q-loop/lid; other site 349106007121 ABC transporter signature motif; other site 349106007122 Walker B; other site 349106007123 D-loop; other site 349106007124 H-loop/switch region; other site 349106007125 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 349106007126 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 349106007127 dimer interface [polypeptide binding]; other site 349106007128 conserved gate region; other site 349106007129 putative PBP binding loops; other site 349106007130 ABC-ATPase subunit interface; other site 349106007131 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 349106007132 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 349106007133 dimer interface [polypeptide binding]; other site 349106007134 conserved gate region; other site 349106007135 putative PBP binding loops; other site 349106007136 ABC-ATPase subunit interface; other site 349106007137 PBP superfamily domain; Region: PBP_like_2; cl17296 349106007138 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 349106007139 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 349106007140 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 349106007141 ThiC-associated domain; Region: ThiC-associated; pfam13667 349106007142 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 349106007143 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 349106007144 catalytic residue [active] 349106007145 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106007146 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106007147 Probable transposase; Region: OrfB_IS605; pfam01385 349106007148 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106007149 META domain; Region: META; pfam03724 349106007150 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 349106007151 methionine synthase; Provisional; Region: PRK01207 349106007152 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 349106007153 substrate binding site [chemical binding]; other site 349106007154 THF binding site; other site 349106007155 zinc-binding site [ion binding]; other site 349106007156 Flavin Reductases; Region: FlaRed; cl00801 349106007157 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349106007158 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 349106007159 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 349106007160 glutaminase active site [active] 349106007161 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 349106007162 dimer interface [polypeptide binding]; other site 349106007163 active site 349106007164 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 349106007165 dimer interface [polypeptide binding]; other site 349106007166 active site 349106007167 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 349106007168 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 349106007169 Substrate binding site; other site 349106007170 Mg++ binding site; other site 349106007171 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 349106007172 active site 349106007173 substrate binding site [chemical binding]; other site 349106007174 CoA binding site [chemical binding]; other site 349106007175 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 349106007176 tetramer interfaces [polypeptide binding]; other site 349106007177 binuclear metal-binding site [ion binding]; other site 349106007178 thiamine monophosphate kinase; Provisional; Region: PRK05731 349106007179 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 349106007180 ATP binding site [chemical binding]; other site 349106007181 dimerization interface [polypeptide binding]; other site 349106007182 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 349106007183 putative RNA binding site [nucleotide binding]; other site 349106007184 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 349106007185 homopentamer interface [polypeptide binding]; other site 349106007186 active site 349106007187 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 349106007188 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 349106007189 substrate binding site [chemical binding]; other site 349106007190 glutamase interaction surface [polypeptide binding]; other site 349106007191 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 349106007192 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 349106007193 homoserine kinase; Provisional; Region: PRK05231 349106007194 Phosphotransferase enzyme family; Region: APH; pfam01636 349106007195 active site 349106007196 substrate binding site [chemical binding]; other site 349106007197 ATP binding site [chemical binding]; other site 349106007198 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 349106007199 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 349106007200 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 349106007201 putative active site [active] 349106007202 putative dimer interface [polypeptide binding]; other site 349106007203 hypothetical protein; Provisional; Region: PRK01752 349106007204 SEC-C motif; Region: SEC-C; pfam02810 349106007205 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; pfam04734 349106007206 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 349106007207 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 349106007208 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 349106007209 active site 349106007210 substrate binding site [chemical binding]; other site 349106007211 Mg2+ binding site [ion binding]; other site 349106007212 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 349106007213 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349106007214 putative active site [active] 349106007215 metal binding site [ion binding]; metal-binding site 349106007216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106007217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 349106007218 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 349106007219 putative effector binding pocket; other site 349106007220 dimerization interface [polypeptide binding]; other site 349106007221 Predicted membrane protein [Function unknown]; Region: COG2259 349106007222 Predicted flavoprotein [General function prediction only]; Region: COG0431 349106007223 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 349106007224 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 349106007225 Isochorismatase family; Region: Isochorismatase; pfam00857 349106007226 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 349106007227 catalytic triad [active] 349106007228 dimer interface [polypeptide binding]; other site 349106007229 conserved cis-peptide bond; other site 349106007230 Predicted acetyltransferase [General function prediction only]; Region: COG2388 349106007231 Pirin-related protein [General function prediction only]; Region: COG1741 349106007232 Pirin; Region: Pirin; pfam02678 349106007233 Pirin; Region: Pirin; pfam02678 349106007234 Pirin-related protein [General function prediction only]; Region: COG1741 349106007235 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 349106007236 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 349106007237 dimer interface [polypeptide binding]; other site 349106007238 FMN binding site [chemical binding]; other site 349106007239 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349106007240 classical (c) SDRs; Region: SDR_c; cd05233 349106007241 NAD(P) binding site [chemical binding]; other site 349106007242 active site 349106007243 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 349106007244 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 349106007245 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349106007246 active site 349106007247 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 349106007248 catalytic residues [active] 349106007249 transcription termination factor Rho; Provisional; Region: rho; PRK09376 349106007250 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 349106007251 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 349106007252 RNA binding site [nucleotide binding]; other site 349106007253 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 349106007254 multimer interface [polypeptide binding]; other site 349106007255 Walker A motif; other site 349106007256 ATP binding site [chemical binding]; other site 349106007257 Walker B motif; other site 349106007258 Predicted metalloprotease [General function prediction only]; Region: COG2321 349106007259 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 349106007260 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 349106007261 IHF - DNA interface [nucleotide binding]; other site 349106007262 IHF dimer interface [polypeptide binding]; other site 349106007263 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 349106007264 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 349106007265 putative tRNA-binding site [nucleotide binding]; other site 349106007266 B3/4 domain; Region: B3_4; pfam03483 349106007267 tRNA synthetase B5 domain; Region: B5; smart00874 349106007268 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 349106007269 dimer interface [polypeptide binding]; other site 349106007270 motif 1; other site 349106007271 motif 3; other site 349106007272 motif 2; other site 349106007273 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 349106007274 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 349106007275 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 349106007276 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 349106007277 dimer interface [polypeptide binding]; other site 349106007278 motif 1; other site 349106007279 active site 349106007280 motif 2; other site 349106007281 motif 3; other site 349106007282 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 349106007283 23S rRNA binding site [nucleotide binding]; other site 349106007284 L21 binding site [polypeptide binding]; other site 349106007285 L13 binding site [polypeptide binding]; other site 349106007286 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 349106007287 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 349106007288 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 349106007289 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 349106007290 metal binding site [ion binding]; metal-binding site 349106007291 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 349106007292 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 349106007293 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 349106007294 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 349106007295 Family description; Region: UvrD_C_2; pfam13538 349106007296 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 349106007297 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 349106007298 FMN binding site [chemical binding]; other site 349106007299 active site 349106007300 catalytic residues [active] 349106007301 substrate binding site [chemical binding]; other site 349106007302 MAPEG family; Region: MAPEG; cl09190 349106007303 OsmC-like protein; Region: OsmC; cl00767 349106007304 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 349106007305 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 349106007306 active site 349106007307 catalytic triad [active] 349106007308 oxyanion hole [active] 349106007309 Autotransporter beta-domain; Region: Autotransporter; smart00869 349106007310 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 349106007311 putative active site [active] 349106007312 Ap4A binding site [chemical binding]; other site 349106007313 nudix motif; other site 349106007314 putative metal binding site [ion binding]; other site 349106007315 NRDE protein; Region: NRDE; cl01315 349106007316 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 349106007317 thymidylate synthase; Reviewed; Region: thyA; PRK01827 349106007318 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 349106007319 dimerization interface [polypeptide binding]; other site 349106007320 active site 349106007321 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 349106007322 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 349106007323 folate binding site [chemical binding]; other site 349106007324 NADP+ binding site [chemical binding]; other site 349106007325 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 349106007326 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 349106007327 putative active site [active] 349106007328 catalytic site [active] 349106007329 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 349106007330 putative active site [active] 349106007331 catalytic site [active] 349106007332 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349106007333 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349106007334 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 349106007335 active site 349106007336 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 349106007337 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 349106007338 putative substrate translocation pore; other site 349106007339 POT family; Region: PTR2; cl17359 349106007340 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 349106007341 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 349106007342 putative active site [active] 349106007343 catalytic triad [active] 349106007344 putative dimer interface [polypeptide binding]; other site 349106007345 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 349106007346 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 349106007347 ssDNA binding site; other site 349106007348 generic binding surface II; other site 349106007349 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 349106007350 ATP binding site [chemical binding]; other site 349106007351 putative Mg++ binding site [ion binding]; other site 349106007352 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 349106007353 nucleotide binding region [chemical binding]; other site 349106007354 ATP-binding site [chemical binding]; other site 349106007355 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 349106007356 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 349106007357 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 349106007358 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 349106007359 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 349106007360 EamA-like transporter family; Region: EamA; pfam00892 349106007361 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349106007362 EamA-like transporter family; Region: EamA; pfam00892 349106007363 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 349106007364 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 349106007365 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 349106007366 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 349106007367 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 349106007368 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 349106007369 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 349106007370 putative ADP-ribose binding site [chemical binding]; other site 349106007371 putative active site [active] 349106007372 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349106007373 FAD binding domain; Region: FAD_binding_4; pfam01565 349106007374 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 349106007375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 349106007376 MOSC domain; Region: MOSC; pfam03473 349106007377 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349106007378 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 349106007379 HlyD family secretion protein; Region: HlyD_3; pfam13437 349106007380 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349106007381 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 349106007382 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 349106007383 Potassium binding sites [ion binding]; other site 349106007384 Cesium cation binding sites [ion binding]; other site 349106007385 Cytochrome c; Region: Cytochrom_C; pfam00034 349106007386 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349106007387 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349106007388 Cytochrome c; Region: Cytochrom_C; pfam00034 349106007389 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 349106007390 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349106007391 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 349106007392 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 349106007393 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 349106007394 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 349106007395 Walker A motif; other site 349106007396 ATP binding site [chemical binding]; other site 349106007397 Walker B motif; other site 349106007398 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 349106007399 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 349106007400 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 349106007401 FeS/SAM binding site; other site 349106007402 HemN C-terminal domain; Region: HemN_C; pfam06969 349106007403 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 349106007404 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 349106007405 dimer interface [polypeptide binding]; other site 349106007406 PYR/PP interface [polypeptide binding]; other site 349106007407 TPP binding site [chemical binding]; other site 349106007408 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 349106007409 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 349106007410 TPP-binding site [chemical binding]; other site 349106007411 dimer interface [polypeptide binding]; other site 349106007412 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 349106007413 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 349106007414 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 349106007415 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 349106007416 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 349106007417 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 349106007418 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 349106007419 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 349106007420 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 349106007421 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 349106007422 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106007423 catalytic residue [active] 349106007424 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 349106007425 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 349106007426 nucleotide binding site [chemical binding]; other site 349106007427 heat shock protein GrpE; Provisional; Region: PRK14140 349106007428 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 349106007429 dimer interface [polypeptide binding]; other site 349106007430 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 349106007431 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 349106007432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106007433 TIGR01777 family protein; Region: yfcH 349106007434 NAD(P) binding site [chemical binding]; other site 349106007435 active site 349106007436 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 349106007437 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 349106007438 DNA protecting protein DprA; Region: dprA; TIGR00732 349106007439 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 349106007440 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 349106007441 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 349106007442 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 349106007443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106007444 catalytic residue [active] 349106007445 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349106007446 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 349106007447 putative NAD(P) binding site [chemical binding]; other site 349106007448 catalytic Zn binding site [ion binding]; other site 349106007449 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 349106007450 16S rRNA methyltransferase B; Provisional; Region: PRK10901 349106007451 NusB family; Region: NusB; pfam01029 349106007452 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 349106007453 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 349106007454 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 349106007455 putative active site [active] 349106007456 substrate binding site [chemical binding]; other site 349106007457 putative cosubstrate binding site; other site 349106007458 catalytic site [active] 349106007459 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 349106007460 substrate binding site [chemical binding]; other site 349106007461 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 349106007462 Lumazine binding domain; Region: Lum_binding; pfam00677 349106007463 Lumazine binding domain; Region: Lum_binding; pfam00677 349106007464 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 349106007465 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 349106007466 catalytic motif [active] 349106007467 Zn binding site [ion binding]; other site 349106007468 RibD C-terminal domain; Region: RibD_C; pfam01872 349106007469 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 349106007470 ATP cone domain; Region: ATP-cone; pfam03477 349106007471 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 349106007472 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 349106007473 trmE is a tRNA modification GTPase; Region: trmE; cd04164 349106007474 G1 box; other site 349106007475 GTP/Mg2+ binding site [chemical binding]; other site 349106007476 Switch I region; other site 349106007477 G2 box; other site 349106007478 Switch II region; other site 349106007479 G3 box; other site 349106007480 G4 box; other site 349106007481 G5 box; other site 349106007482 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 349106007483 membrane protein insertase; Provisional; Region: PRK01318 349106007484 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 349106007485 hypothetical protein; Provisional; Region: PRK14370 349106007486 Ribonuclease P; Region: Ribonuclease_P; pfam00825