-- dump date 20120504_155809 -- 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; cl07362 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 DNA-binding interface [nucleotide binding]; DNA binding site 349106000005 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 349106000006 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; cl16911 349106000007 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 349106000008 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 349106000009 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 349106000010 non-specific DNA binding site [nucleotide binding]; other site 349106000011 salt bridge; other site 349106000012 sequence-specific DNA binding site [nucleotide binding]; other site 349106000013 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349106000014 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 349106000015 catalytic residues [active] 349106000016 catalytic nucleophile [active] 349106000017 Sel1 repeat; Region: Sel1; cl02723 349106000018 Sel1 repeat; Region: Sel1; cl02723 349106000019 Sel1 repeat; Region: Sel1; cl02723 349106000020 Sel1 repeat; Region: Sel1; cl02723 349106000021 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 349106000022 Integrase core domain; Region: rve; cl01316 349106000023 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 349106000024 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 349106000025 Replication protein; Region: Rep_1; cl02412 349106000026 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 349106000027 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 349106000028 DnaA N-terminal domain; Region: DnaA_N; pfam11638 349106000029 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 349106000030 Walker A motif; other site 349106000031 ATP binding site [chemical binding]; other site 349106000032 Walker B motif; other site 349106000033 arginine finger; other site 349106000034 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 349106000035 DnaA box-binding interface [nucleotide binding]; other site 349106000036 DNA polymerase III subunit beta; Validated; Region: PRK05643 349106000037 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 349106000038 putative DNA binding surface [nucleotide binding]; other site 349106000039 dimer interface [polypeptide binding]; other site 349106000040 beta-clamp/clamp loader binding surface; other site 349106000041 beta-clamp/translesion DNA polymerase binding surface; other site 349106000042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000043 Walker A/P-loop; other site 349106000044 ATP binding site [chemical binding]; other site 349106000045 Q-loop/lid; other site 349106000046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000047 Walker B; other site 349106000048 D-loop; other site 349106000049 H-loop/switch region; other site 349106000050 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 349106000051 Mg2+ binding site [ion binding]; other site 349106000052 G-X-G motif; other site 349106000053 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 349106000054 anchoring element; other site 349106000055 dimer interface [polypeptide binding]; other site 349106000056 ATP binding site [chemical binding]; other site 349106000057 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 349106000058 active site 349106000059 putative metal-binding site [ion binding]; other site 349106000060 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 349106000061 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349106000062 Domain of unknown function DUF; Region: DUF204; pfam02659 349106000063 Domain of unknown function DUF; Region: DUF204; pfam02659 349106000064 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 349106000065 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 349106000066 S-adenosylmethionine binding site [chemical binding]; other site 349106000067 enoyl-CoA hydratase; Provisional; Region: PRK06563 349106000068 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 349106000069 substrate binding site [chemical binding]; other site 349106000070 oxyanion hole (OAH) forming residues; other site 349106000071 trimer interface [polypeptide binding]; other site 349106000072 Membrane transport protein; Region: Mem_trans; cl09117 349106000073 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 349106000074 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 349106000075 putative acetyltransferase; Provisional; Region: PRK03624 349106000076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106000077 Coenzyme A binding pocket [chemical binding]; other site 349106000078 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 349106000079 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 349106000080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000081 homodimer interface [polypeptide binding]; other site 349106000082 catalytic residue [active] 349106000083 BCCT family transporter; Region: BCCT; cl00569 349106000084 GMP synthase; Reviewed; Region: guaA; PRK00074 349106000085 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 349106000086 AMP/PPi binding site [chemical binding]; other site 349106000087 candidate oxyanion hole; other site 349106000088 catalytic triad [active] 349106000089 potential glutamine specificity residues [chemical binding]; other site 349106000090 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 349106000091 ATP Binding subdomain [chemical binding]; other site 349106000092 Ligand Binding sites [chemical binding]; other site 349106000093 Dimerization subdomain; other site 349106000094 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349106000095 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349106000096 NAD(P) binding site [chemical binding]; other site 349106000097 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 349106000098 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 349106000099 GDYXXLXY protein; Region: GDYXXLXY; cl02066 349106000100 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 349106000101 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349106000102 peptide binding site [polypeptide binding]; other site 349106000103 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 349106000104 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349106000105 peptide binding site [polypeptide binding]; other site 349106000106 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 349106000107 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 349106000108 peptide binding site [polypeptide binding]; other site 349106000109 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 349106000110 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 349106000111 dimer interface [polypeptide binding]; other site 349106000112 conserved gate region; other site 349106000113 putative PBP binding loops; other site 349106000114 ABC-ATPase subunit interface; other site 349106000115 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 349106000116 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 349106000117 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 349106000118 dimer interface [polypeptide binding]; other site 349106000119 conserved gate region; other site 349106000120 ABC-ATPase subunit interface; other site 349106000121 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 349106000122 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349106000123 Walker A/P-loop; other site 349106000124 ATP binding site [chemical binding]; other site 349106000125 Q-loop/lid; other site 349106000126 ABC transporter signature motif; other site 349106000127 Walker B; other site 349106000128 D-loop; other site 349106000129 H-loop/switch region; other site 349106000130 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106000131 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 349106000132 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349106000133 Walker A/P-loop; other site 349106000134 ATP binding site [chemical binding]; other site 349106000135 Q-loop/lid; other site 349106000136 ABC transporter signature motif; other site 349106000137 Walker B; other site 349106000138 D-loop; other site 349106000139 H-loop/switch region; other site 349106000140 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106000141 hypothetical protein; Provisional; Region: PRK10215 349106000142 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 349106000143 Nitronate monooxygenase; Region: NMO; pfam03060 349106000144 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 349106000145 FMN binding site [chemical binding]; other site 349106000146 substrate binding site [chemical binding]; other site 349106000147 putative catalytic residue [active] 349106000148 Protein of unknown function (DUF511); Region: DUF511; cl01114 349106000149 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 349106000150 MatE; Region: MatE; cl10513 349106000151 MatE; Region: MatE; cl10513 349106000152 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 349106000153 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 349106000154 active site 349106000155 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 349106000156 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; cl12031 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 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 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; cl00978 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; cl00649 349106000194 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 349106000195 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349106000196 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 349106000197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000198 Walker A/P-loop; other site 349106000199 ATP binding site [chemical binding]; other site 349106000200 Q-loop/lid; other site 349106000201 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349106000202 ABC transporter; Region: ABC_tran_2; pfam12848 349106000203 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349106000204 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 349106000205 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 349106000206 HSP70 interaction site [polypeptide binding]; other site 349106000207 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 349106000208 substrate binding site [polypeptide binding]; other site 349106000209 dimer interface [polypeptide binding]; other site 349106000210 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 349106000211 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 349106000212 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 349106000213 multifunctional aminopeptidase A; Provisional; Region: PRK00913 349106000214 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 349106000215 interface (dimer of trimers) [polypeptide binding]; other site 349106000216 Substrate-binding/catalytic site; other site 349106000217 Zn-binding sites [ion binding]; other site 349106000218 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 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; Validated; Region: hisB; PRK00951 349106000233 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 349106000234 putative active site pocket [active] 349106000235 4-fold oligomerization interface [polypeptide binding]; other site 349106000236 metal binding residues [ion binding]; metal-binding site 349106000237 3-fold/trimer interface [polypeptide binding]; other site 349106000238 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 349106000239 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 349106000240 putative active site [active] 349106000241 oxyanion strand; other site 349106000242 catalytic triad [active] 349106000243 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 349106000244 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 349106000245 aconitate hydratase; Validated; Region: PRK09277 349106000246 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 349106000247 substrate binding site [chemical binding]; other site 349106000248 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 349106000249 ligand binding site [chemical binding]; other site 349106000250 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 349106000251 substrate binding site [chemical binding]; other site 349106000252 Protein of unknown function (DUF1622); Region: DUF1622; cl01991 349106000253 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 349106000254 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 349106000255 active site 349106000256 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 349106000257 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106000258 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; cl12031 349106000259 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 349106000260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000261 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 349106000262 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 349106000263 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 349106000264 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 349106000265 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 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; cl15850 349106000268 short chain dehydrogenase; Provisional; Region: PRK06924 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 Integral membrane protein TerC family; Region: TerC; cl10468 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; cl00884 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 protein involved in stress response [General function prediction only]; Region: COG4110 349106000287 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106000288 putative metal binding site [ion binding]; other site 349106000289 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106000290 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106000291 active site 349106000292 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 349106000293 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 349106000294 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 349106000295 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349106000296 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 349106000297 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 349106000298 Walker A/P-loop; other site 349106000299 ATP binding site [chemical binding]; other site 349106000300 Q-loop/lid; other site 349106000301 ABC transporter signature motif; other site 349106000302 Walker B; other site 349106000303 D-loop; other site 349106000304 H-loop/switch region; other site 349106000305 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 349106000306 active site 349106000307 catalytic triad [active] 349106000308 oxyanion hole [active] 349106000309 switch loop; other site 349106000310 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106000311 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 349106000312 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 349106000313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000314 homodimer interface [polypeptide binding]; other site 349106000315 catalytic residue [active] 349106000316 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 349106000317 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 349106000318 putative substrate translocation pore; other site 349106000319 Protein of unknown function (DUF539); Region: DUF539; cl01129 349106000320 ApbE family; Region: ApbE; cl00643 349106000321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000322 short chain dehydrogenase; Provisional; Region: PRK06181 349106000323 NAD(P) binding site [chemical binding]; other site 349106000324 active site 349106000325 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 349106000326 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 349106000327 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 349106000328 catalytic loop [active] 349106000329 iron binding site [ion binding]; other site 349106000330 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 349106000331 FAD binding pocket [chemical binding]; other site 349106000332 FAD binding motif [chemical binding]; other site 349106000333 phosphate binding motif [ion binding]; other site 349106000334 beta-alpha-beta structure motif; other site 349106000335 NAD binding pocket [chemical binding]; other site 349106000336 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 349106000337 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 349106000338 FMN-binding domain; Region: FMN_bind; cl01081 349106000339 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 349106000340 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 349106000341 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 349106000342 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 349106000343 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 349106000344 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 349106000345 catalytic residues [active] 349106000346 periplasmic protein; Provisional; Region: PRK10568 349106000347 BON domain; Region: BON; cl02771 349106000348 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106000349 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; cl09108 349106000350 phosphate binding site [ion binding]; other site 349106000351 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349106000352 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 349106000353 putative NAD(P) binding site [chemical binding]; other site 349106000354 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 349106000355 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106000356 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349106000357 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349106000358 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 349106000359 Walker A/P-loop; other site 349106000360 ATP binding site [chemical binding]; other site 349106000361 Q-loop/lid; other site 349106000362 ABC transporter signature motif; other site 349106000363 Walker B; other site 349106000364 D-loop; other site 349106000365 H-loop/switch region; other site 349106000366 glycerate dehydrogenase; Provisional; Region: PRK06487 349106000367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000368 ATP-dependent helicase HepA; Validated; Region: PRK04914 349106000369 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 349106000370 ATP binding site [chemical binding]; other site 349106000371 putative Mg++ binding site [ion binding]; other site 349106000372 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 349106000373 nucleotide binding region [chemical binding]; other site 349106000374 ATP-binding site [chemical binding]; other site 349106000375 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 349106000376 putative deacylase active site [active] 349106000377 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 349106000378 putative substrate binding pocket [chemical binding]; other site 349106000379 trimer interface [polypeptide binding]; other site 349106000380 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106000381 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106000382 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106000383 active site 349106000384 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106000385 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000386 Probable transposase; Region: OrfB_IS605; pfam01385 349106000387 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000388 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 349106000389 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 349106000390 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 349106000391 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 349106000392 shikimate binding site; other site 349106000393 NAD(P) binding site [chemical binding]; other site 349106000394 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 349106000395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000396 catalytic residue [active] 349106000397 DpnD/PcfM-like protein; Region: DpnD-PcfM; pfam14207 349106000398 Dam-replacing family; Region: DRP; pfam06044 349106000399 YceG-like family; Region: YceG; pfam02618 349106000400 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 349106000401 dimerization interface [polypeptide binding]; other site 349106000402 thymidylate kinase; Validated; Region: tmk; PRK00698 349106000403 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 349106000404 TMP-binding site; other site 349106000405 ATP-binding site [chemical binding]; other site 349106000406 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349106000407 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 349106000408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000409 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 349106000410 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349106000411 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 349106000412 protein binding site [polypeptide binding]; other site 349106000413 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 349106000414 protein binding site [polypeptide binding]; other site 349106000415 Pirin-related protein [General function prediction only]; Region: COG1741 349106000416 Cupin domain; Region: Cupin_2; cl09118 349106000417 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 349106000418 Protein of unknown function DUF45; Region: DUF45; cl00636 349106000419 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 349106000420 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349106000421 HIGH motif; other site 349106000422 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 349106000423 active site 349106000424 KMSKS motif; other site 349106000425 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 349106000426 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; cl16911 349106000427 Septum formation initiator; Region: DivIC; cl11433 349106000428 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 349106000429 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349106000430 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106000431 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 349106000432 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106000433 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106000434 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 349106000435 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349106000436 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106000437 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106000438 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 349106000439 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 349106000440 Mg++ binding site [ion binding]; other site 349106000441 putative catalytic motif [active] 349106000442 putative substrate binding site [chemical binding]; other site 349106000443 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 349106000444 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; cl16911 349106000445 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 349106000446 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 349106000447 active site 349106000448 Int/Topo IB signature motif; other site 349106000449 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 349106000450 CPxP motif; other site 349106000451 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106000452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000453 Probable transposase; Region: OrfB_IS605; pfam01385 349106000454 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000455 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 includes...; Region: RuvC_resolvase; cl00243 349106000456 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 349106000457 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 349106000458 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 349106000459 Walker A/P-loop; other site 349106000460 ATP binding site [chemical binding]; other site 349106000461 Q-loop/lid; other site 349106000462 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000463 ABC transporter signature motif; other site 349106000464 Walker B; other site 349106000465 D-loop; other site 349106000466 H-loop/switch region; other site 349106000467 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 349106000468 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 349106000469 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 349106000470 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 349106000471 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 349106000472 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 349106000473 CoA-binding site [chemical binding]; other site 349106000474 ATP-binding [chemical binding]; other site 349106000475 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 349106000476 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 349106000477 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 349106000478 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 349106000479 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 349106000480 Type II/IV secretion system protein; Region: T2SE; pfam00437 349106000481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000482 Walker A motif; other site 349106000483 ATP binding site [chemical binding]; other site 349106000484 Walker B motif; other site 349106000485 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 349106000486 substrate binding site [chemical binding]; other site 349106000487 dimer interface [polypeptide binding]; other site 349106000488 catalytic triad [active] 349106000489 Preprotein translocase SecG subunit; Region: SecG; cl09123 349106000490 ribosome maturation protein RimP; Reviewed; Region: PRK00092 349106000491 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 349106000492 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 349106000493 Sm1 motif; other site 349106000494 D1 - D2 interaction site; other site 349106000495 D3 - B interaction site; other site 349106000496 Hfq - Hfq interaction site; other site 349106000497 RNA binding pocket [nucleotide binding]; other site 349106000498 Sm2 motif; other site 349106000499 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 349106000500 NusA N-terminal domain; Region: NusA_N; pfam08529 349106000501 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 349106000502 RNA binding site [nucleotide binding]; other site 349106000503 homodimer interface [polypeptide binding]; other site 349106000504 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 349106000505 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 349106000506 G-X-X-G motif; other site 349106000507 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 349106000508 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 349106000509 translation initiation factor IF-2; Validated; Region: infB; PRK05306 349106000510 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 349106000511 translation initiation factor IF-2; Region: IF-2; TIGR00487 349106000512 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 349106000513 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 349106000514 G1 box; other site 349106000515 putative GEF interaction site [polypeptide binding]; other site 349106000516 GTP/Mg2+ binding site [chemical binding]; other site 349106000517 Switch I region; other site 349106000518 G2 box; other site 349106000519 G3 box; other site 349106000520 Switch II region; other site 349106000521 G4 box; other site 349106000522 G5 box; other site 349106000523 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 349106000524 Translation-initiation factor 2; Region: IF-2; pfam11987 349106000525 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 349106000526 Ribosome-binding factor A; Region: RBFA; cl00542 349106000527 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 349106000528 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 349106000529 RNA binding site [nucleotide binding]; other site 349106000530 active site 349106000531 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 349106000532 intracellular protease, PfpI family; Region: PfpI; TIGR01382 349106000533 proposed catalytic triad [active] 349106000534 conserved cys residue [active] 349106000535 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 349106000536 16S/18S rRNA binding site [nucleotide binding]; other site 349106000537 S13e-L30e interaction site [polypeptide binding]; other site 349106000538 25S rRNA binding site [nucleotide binding]; other site 349106000539 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 349106000540 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 349106000541 RNase E interface [polypeptide binding]; other site 349106000542 trimer interface [polypeptide binding]; other site 349106000543 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 349106000544 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 349106000545 RNase E interface [polypeptide binding]; other site 349106000546 trimer interface [polypeptide binding]; other site 349106000547 active site 349106000548 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 349106000549 putative nucleic acid binding region [nucleotide binding]; other site 349106000550 G-X-X-G motif; other site 349106000551 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 349106000552 RNA binding site [nucleotide binding]; other site 349106000553 domain interface; other site 349106000554 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106000555 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 349106000556 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 349106000557 putative acyl-acceptor binding pocket; other site 349106000558 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 349106000559 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 349106000560 active site 349106000561 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 349106000562 catalytic triad [active] 349106000563 dimer interface [polypeptide binding]; other site 349106000564 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349106000565 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 349106000566 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349106000567 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 349106000568 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349106000569 minor groove reading motif; other site 349106000570 helix-hairpin-helix signature motif; other site 349106000571 substrate binding pocket [chemical binding]; other site 349106000572 active site 349106000573 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 349106000574 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 349106000575 DNA binding and oxoG recognition site [nucleotide binding] 349106000576 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 349106000577 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 349106000578 GTP/Mg2+ binding site [chemical binding]; other site 349106000579 G4 box; other site 349106000580 G5 box; other site 349106000581 G1 box; other site 349106000582 Switch I region; other site 349106000583 G2 box; other site 349106000584 G3 box; other site 349106000585 Switch II region; other site 349106000586 Dienelactone hydrolase family; Region: DLH; pfam01738 349106000587 Flagellin N-methylase; Region: FliB; cl00497 349106000588 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 349106000589 Nitrogen regulatory protein P-II; Region: P-II; cl00412 349106000590 Nitrogen regulatory protein P-II; Region: P-II; smart00938 349106000591 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 349106000592 Ligand Binding Site [chemical binding]; other site 349106000593 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 349106000594 Sulfate transporter family; Region: Sulfate_transp; cl15842 349106000595 Sulfate transporter family; Region: Sulfate_transp; cl15842 349106000596 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 349106000597 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 349106000598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000599 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106000600 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106000601 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 349106000602 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106000603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000604 Probable transposase; Region: OrfB_IS605; pfam01385 349106000605 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000606 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106000607 active site 349106000608 HIGH motif; other site 349106000609 nucleotide binding site [chemical binding]; other site 349106000610 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106000611 active site 349106000612 KMSKS motif; other site 349106000613 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 349106000614 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349106000615 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 349106000616 hexamer interface [polypeptide binding]; other site 349106000617 active site 349106000618 metal binding site [ion binding]; metal-binding site 349106000619 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 349106000620 ABC-ATPase subunit interface; other site 349106000621 dimer interface [polypeptide binding]; other site 349106000622 putative PBP binding regions; other site 349106000623 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 349106000624 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000625 Walker A/P-loop; other site 349106000626 ATP binding site [chemical binding]; other site 349106000627 Q-loop/lid; other site 349106000628 ABC transporter signature motif; other site 349106000629 Walker B; other site 349106000630 D-loop; other site 349106000631 H-loop/switch region; other site 349106000632 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349106000633 metal binding site 2 [ion binding]; metal-binding site 349106000634 putative DNA binding helix; other site 349106000635 metal binding site 1 [ion binding]; metal-binding site 349106000636 dimer interface [polypeptide binding]; other site 349106000637 structural Zn2+ binding site [ion binding]; other site 349106000638 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 349106000639 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 349106000640 intersubunit interface [polypeptide binding]; other site 349106000641 ATP synthase I chain; Region: ATP_synt_I; cl09170 349106000642 ATP synthase A chain; Region: ATP-synt_A; cl00413 349106000643 ATP synthase subunit C; Region: ATP-synt_C; cl00466 349106000644 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 349106000645 Plant ATP synthase F0; Region: YMF19; cl07975 349106000646 Plant ATP synthase F0; Region: YMF19; cl07975 349106000647 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 349106000648 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 349106000649 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 349106000650 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 349106000651 beta subunit interaction interface [polypeptide binding]; other site 349106000652 Walker A motif; other site 349106000653 ATP binding site [chemical binding]; other site 349106000654 Walker B motif; other site 349106000655 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349106000656 ATP synthase; Region: ATP-synt; cl00365 349106000657 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 349106000658 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 349106000659 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 349106000660 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 349106000661 alpha subunit interaction interface [polypeptide binding]; other site 349106000662 Walker A motif; other site 349106000663 ATP binding site [chemical binding]; other site 349106000664 Walker B motif; other site 349106000665 inhibitor binding site; inhibition site 349106000666 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 349106000667 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 349106000668 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 349106000669 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 349106000670 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106000671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000672 Probable transposase; Region: OrfB_IS605; pfam01385 349106000673 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000674 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 349106000675 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 349106000676 active site 349106000677 phosphorylation site [posttranslational modification] 349106000678 intermolecular recognition site; other site 349106000679 dimerization interface [polypeptide binding]; other site 349106000680 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 349106000681 DNA binding site [nucleotide binding] 349106000682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000683 Probable transposase; Region: OrfB_IS605; pfam01385 349106000684 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000685 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349106000686 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 349106000687 dimerization interface [polypeptide binding]; other site 349106000688 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 349106000689 dimer interface [polypeptide binding]; other site 349106000690 phosphorylation site [posttranslational modification] 349106000691 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 349106000692 ATP binding site [chemical binding]; other site 349106000693 Mg2+ binding site [ion binding]; other site 349106000694 G-X-G motif; other site 349106000695 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 349106000696 dimerization interface [polypeptide binding]; other site 349106000697 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 349106000698 dimer interface [polypeptide binding]; other site 349106000699 phosphorylation site [posttranslational modification] 349106000700 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 349106000701 ATP binding site [chemical binding]; other site 349106000702 Mg2+ binding site [ion binding]; other site 349106000703 G-X-G motif; other site 349106000704 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 349106000705 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 349106000706 RimM N-terminal domain; Region: RimM; pfam01782 349106000707 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 349106000708 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 349106000709 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 349106000710 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 349106000711 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 349106000712 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 349106000713 GIY-YIG motif/motif A; other site 349106000714 active site 349106000715 catalytic site [active] 349106000716 putative DNA binding site [nucleotide binding]; other site 349106000717 metal binding site [ion binding]; metal-binding site 349106000718 UvrB/uvrC motif; Region: UVR; pfam02151 349106000719 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 349106000720 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106000721 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106000722 Probable transposase; Region: OrfB_IS605; pfam01385 349106000723 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106000724 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 349106000725 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 349106000726 dimer interface [polypeptide binding]; other site 349106000727 active site 349106000728 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 349106000729 BolA-like protein; Region: BolA; cl00386 349106000730 Peptidase family M48; Region: Peptidase_M48; cl12018 349106000731 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 349106000732 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 349106000733 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 349106000734 molybdopterin cofactor binding site [chemical binding]; other site 349106000735 substrate binding site [chemical binding]; other site 349106000736 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 349106000737 molybdopterin cofactor binding site; other site 349106000738 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 349106000739 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 349106000740 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 349106000741 dimer interface [polypeptide binding]; other site 349106000742 putative functional site; other site 349106000743 putative MPT binding site; other site 349106000744 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 349106000745 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 349106000746 FeS/SAM binding site; other site 349106000747 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 349106000748 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 349106000749 MPT binding site; other site 349106000750 trimer interface [polypeptide binding]; other site 349106000751 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 349106000752 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 349106000753 GTP binding site; other site 349106000754 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 349106000755 trimer interface [polypeptide binding]; other site 349106000756 dimer interface [polypeptide binding]; other site 349106000757 putative active site [active] 349106000758 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 349106000759 MoaE interaction surface [polypeptide binding]; other site 349106000760 MoeB interaction surface [polypeptide binding]; other site 349106000761 thiocarboxylated glycine; other site 349106000762 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 349106000763 MoaE homodimer interface [polypeptide binding]; other site 349106000764 MoaD interaction [polypeptide binding]; other site 349106000765 active site residues [active] 349106000766 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 349106000767 dimer interface [polypeptide binding]; other site 349106000768 conserved gate region; other site 349106000769 putative PBP binding loops; other site 349106000770 ABC-ATPase subunit interface; other site 349106000771 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 349106000772 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 349106000773 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 349106000774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000775 homodimer interface [polypeptide binding]; other site 349106000776 catalytic residue [active] 349106000777 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 349106000778 UDP-glucose 4-epimerase; Region: PLN02240 349106000779 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 349106000780 NAD binding site [chemical binding]; other site 349106000781 homodimer interface [polypeptide binding]; other site 349106000782 active site 349106000783 substrate binding site [chemical binding]; other site 349106000784 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 349106000785 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349106000786 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 349106000787 putative NAD(P) binding site [chemical binding]; other site 349106000788 active site 349106000789 putative substrate binding site [chemical binding]; other site 349106000790 Bacterial sugar transferase; Region: Bac_transf; cl00939 349106000791 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106000792 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 349106000793 putative ADP-binding pocket [chemical binding]; other site 349106000794 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 349106000795 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 349106000796 putative ADP-binding pocket [chemical binding]; other site 349106000797 HTH-like domain; Region: HTH_21; pfam13276 349106000798 Integrase core domain; Region: rve; cl01316 349106000799 Helix-turn-helix domains; Region: HTH; cl00088 349106000800 Helix-turn-helix domains; Region: HTH; cl00088 349106000801 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 349106000802 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 349106000803 active site 349106000804 dimer interface [polypeptide binding]; other site 349106000805 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 349106000806 Ligand Binding Site [chemical binding]; other site 349106000807 Molecular Tunnel; other site 349106000808 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106000809 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 349106000810 MatE; Region: MatE; cl10513 349106000811 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 349106000812 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 349106000813 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106000814 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 349106000815 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 349106000816 inhibitor-cofactor binding pocket; inhibition site 349106000817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106000818 catalytic residue [active] 349106000819 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 349106000820 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 349106000821 putative trimer interface [polypeptide binding]; other site 349106000822 putative active site [active] 349106000823 putative substrate binding site [chemical binding]; other site 349106000824 putative CoA binding site [chemical binding]; other site 349106000825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000826 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 349106000827 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 349106000828 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 349106000829 NAD binding site [chemical binding]; other site 349106000830 substrate binding site [chemical binding]; other site 349106000831 homodimer interface [polypeptide binding]; other site 349106000832 active site 349106000833 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 349106000834 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349106000835 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000836 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 349106000837 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 349106000838 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 349106000839 NAD(P) binding site [chemical binding]; other site 349106000840 homodimer interface [polypeptide binding]; other site 349106000841 substrate binding site [chemical binding]; other site 349106000842 active site 349106000843 tyrosine kinase; Provisional; Region: PRK11519 349106000844 Chain length determinant protein; Region: Wzz; cl15801 349106000845 Chain length determinant protein; Region: Wzz; cl15801 349106000846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000847 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349106000848 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349106000849 active site 349106000850 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 349106000851 polysaccharide export protein Wza; Provisional; Region: PRK15078 349106000852 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 349106000853 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106000854 Family description; Region: UvrD_C_2; cl15862 349106000855 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106000856 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106000857 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 349106000858 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 349106000859 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; cl00522 349106000860 dimerization interface [polypeptide binding]; other site 349106000861 active site 349106000862 recombination factor protein RarA; Reviewed; Region: PRK13342 349106000863 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 349106000864 Walker A motif; other site 349106000865 ATP binding site [chemical binding]; other site 349106000866 Walker B motif; other site 349106000867 arginine finger; other site 349106000868 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 349106000869 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 349106000870 dimer interface [polypeptide binding]; other site 349106000871 Citrate synthase; Region: Citrate_synt; pfam00285 349106000872 active site 349106000873 citrylCoA binding site [chemical binding]; other site 349106000874 NADH binding [chemical binding]; other site 349106000875 cationic pore residues; other site 349106000876 oxalacetate/citrate binding site [chemical binding]; other site 349106000877 coenzyme A binding site [chemical binding]; other site 349106000878 catalytic triad [active] 349106000879 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 349106000880 Iron-sulfur protein interface; other site 349106000881 proximal quinone binding site [chemical binding]; other site 349106000882 SdhD (CybS) interface [polypeptide binding]; other site 349106000883 proximal heme binding site [chemical binding]; other site 349106000884 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 349106000885 SdhC subunit interface [polypeptide binding]; other site 349106000886 proximal heme binding site [chemical binding]; other site 349106000887 cardiolipin binding site; other site 349106000888 Iron-sulfur protein interface; other site 349106000889 proximal quinone binding site [chemical binding]; other site 349106000890 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 349106000891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000892 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349106000893 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 349106000894 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; cl00159 349106000895 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106000896 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106000897 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 349106000898 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 349106000899 TPP-binding site [chemical binding]; other site 349106000900 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 349106000901 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 349106000902 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 349106000903 E3 interaction surface; other site 349106000904 lipoyl attachment site [posttranslational modification]; other site 349106000905 e3 binding domain; Region: E3_binding; pfam02817 349106000906 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 349106000907 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 349106000908 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106000909 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106000910 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 349106000911 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106000912 CoA-ligase; Region: Ligase_CoA; cl02894 349106000913 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 349106000914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000915 CoA-ligase; Region: Ligase_CoA; cl02894 349106000916 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 349106000917 active site 349106000918 tetramer interface; other site 349106000919 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 349106000920 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 349106000921 active site 349106000922 dimer interface [polypeptide binding]; other site 349106000923 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 349106000924 dimer interface [polypeptide binding]; other site 349106000925 active site 349106000926 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349106000927 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000928 phosphomannomutase CpsG; Provisional; Region: PRK15414 349106000929 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 349106000930 active site 349106000931 substrate binding site [chemical binding]; other site 349106000932 metal binding site [ion binding]; metal-binding site 349106000933 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 349106000934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000935 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 349106000936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000937 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 349106000938 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 349106000939 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 349106000940 Sodium:solute symporter family; Region: SSF; cl00456 349106000941 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 349106000942 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 349106000943 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 349106000944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000945 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 349106000946 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 349106000947 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 349106000948 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 349106000949 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349106000950 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 catalyze...; Region: LT_GEWL; cd00254 349106000951 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106000952 catalytic residue [active] 349106000953 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349106000954 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 349106000955 active site 349106000956 phosphate binding residues; other site 349106000957 catalytic residues [active] 349106000958 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; cl16911 349106000959 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 349106000960 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 349106000961 S-adenosylmethionine binding site [chemical binding]; other site 349106000962 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 349106000963 S-adenosylmethionine binding site [chemical binding]; other site 349106000964 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 349106000965 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 349106000966 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 349106000967 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106000968 active site 349106000969 HIGH motif; other site 349106000970 nucleotide binding site [chemical binding]; other site 349106000971 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 349106000972 KMSK motif region; other site 349106000973 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349106000974 tRNA binding surface [nucleotide binding]; other site 349106000975 anticodon binding site; other site 349106000976 Sporulation related domain; Region: SPOR; cl10051 349106000977 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106000978 Helix-turn-helix domains; Region: HTH; cl00088 349106000979 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106000980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106000981 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 349106000982 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 349106000983 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 349106000984 substrate binding site [chemical binding]; other site 349106000985 oxyanion hole (OAH) forming residues; other site 349106000986 trimer interface [polypeptide binding]; other site 349106000987 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; cl15762 349106000988 enoyl-CoA hydratase; Provisional; Region: PRK09076 349106000989 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 349106000990 substrate binding site [chemical binding]; other site 349106000991 oxyanion hole (OAH) forming residues; other site 349106000992 trimer interface [polypeptide binding]; other site 349106000993 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349106000994 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106000995 active site 349106000996 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 349106000997 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106000998 tetrameric interface [polypeptide binding]; other site 349106000999 NAD binding site [chemical binding]; other site 349106001000 catalytic residues [active] 349106001001 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 349106001002 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 349106001003 AMP-binding enzyme; Region: AMP-binding; cl15778 349106001004 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106001005 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 349106001006 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 349106001007 putative substrate translocation pore; other site 349106001008 short chain dehydrogenase; Validated; Region: PRK06182 349106001009 classical (c) SDRs; Region: SDR_c; cd05233 349106001010 NAD(P) binding site [chemical binding]; other site 349106001011 active site 349106001012 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 349106001013 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 349106001014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106001015 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 349106001016 Walker A motif; other site 349106001017 ATP binding site [chemical binding]; other site 349106001018 Walker B motif; other site 349106001019 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349106001020 Clp protease; Region: CLP_protease; pfam00574 349106001021 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 349106001022 oligomer interface [polypeptide binding]; other site 349106001023 active site residues [active] 349106001024 trigger factor; Provisional; Region: tig; PRK01490 349106001025 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 349106001026 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 349106001027 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 349106001028 active site 349106001029 dimerization interface [polypeptide binding]; other site 349106001030 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 349106001031 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 349106001032 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 349106001033 Protein of unknown function DUF72; Region: DUF72; cl00777 349106001034 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 349106001035 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 349106001036 tRNA; other site 349106001037 putative tRNA binding site [nucleotide binding]; other site 349106001038 putative NADP binding site [chemical binding]; other site 349106001039 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 349106001040 Rhomboid family; Region: Rhomboid; cl11446 349106001041 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 349106001042 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106001043 ligand binding site [chemical binding]; other site 349106001044 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 349106001045 carboxy-terminal protease; Provisional; Region: PRK11186 349106001046 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 349106001047 protein binding site [polypeptide binding]; other site 349106001048 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 349106001049 Catalytic dyad [active] 349106001050 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 349106001051 CsbD-like; Region: CsbD; cl15799 349106001052 DDE superfamily endonuclease; Region: DDE_4; cl15789 349106001053 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349106001054 DDE superfamily endonuclease; Region: DDE_4; cl15789 349106001055 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 349106001056 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 349106001057 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 349106001058 dimer interface [polypeptide binding]; other site 349106001059 phosphorylation site [posttranslational modification] 349106001060 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 349106001061 ATP binding site [chemical binding]; other site 349106001062 Mg2+ binding site [ion binding]; other site 349106001063 G-X-G motif; other site 349106001064 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 349106001065 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 349106001066 active site 349106001067 phosphorylation site [posttranslational modification] 349106001068 intermolecular recognition site; other site 349106001069 dimerization interface [polypeptide binding]; other site 349106001070 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 349106001071 DNA binding site [nucleotide binding] 349106001072 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 349106001073 dimer interface [polypeptide binding]; other site 349106001074 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 349106001075 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 349106001076 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 349106001077 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 349106001078 PhnA protein; Region: PhnA; pfam03831 349106001079 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 349106001080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106001081 active site 349106001082 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 349106001083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106001084 Walker A/P-loop; other site 349106001085 ATP binding site [chemical binding]; other site 349106001086 Q-loop/lid; other site 349106001087 ABC transporter signature motif; other site 349106001088 Walker B; other site 349106001089 D-loop; other site 349106001090 H-loop/switch region; other site 349106001091 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 349106001092 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349106001093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106001094 Walker A/P-loop; other site 349106001095 ATP binding site [chemical binding]; other site 349106001096 Q-loop/lid; other site 349106001097 ABC transporter signature motif; other site 349106001098 Walker B; other site 349106001099 D-loop; other site 349106001100 H-loop/switch region; other site 349106001101 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 349106001102 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 349106001103 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 349106001104 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 349106001105 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 349106001106 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 349106001107 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 349106001108 inhibitor-cofactor binding pocket; inhibition site 349106001109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001110 catalytic residue [active] 349106001111 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 349106001112 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 349106001113 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349106001114 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 protein; Region: CSP_CDS; cd04458 349106001115 DNA-binding site [nucleotide binding]; DNA binding site 349106001116 RNA-binding motif; other site 349106001117 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 349106001118 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 349106001119 putative molybdopterin cofactor binding site [chemical binding]; other site 349106001120 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 349106001121 putative molybdopterin cofactor binding site; other site 349106001122 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 349106001123 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 349106001124 Ligand Binding Site [chemical binding]; other site 349106001125 TilS substrate binding domain; Region: TilS; pfam09179 349106001126 B3/4 domain; Region: B3_4; cl11458 349106001127 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 349106001128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001129 YGGT family; Region: YGGT; cl00508 349106001130 RDD family; Region: RDD; cl00746 349106001131 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 349106001132 FMN binding site [chemical binding]; other site 349106001133 active site 349106001134 substrate binding site [chemical binding]; other site 349106001135 catalytic residue [active] 349106001136 Type III pantothenate kinase; Region: Pan_kinase; cl09130 349106001137 Oligomerisation domain; Region: Oligomerisation; cl00519 349106001138 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 349106001139 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 349106001140 active site 349106001141 (T/H)XGH motif; other site 349106001142 phosphate acetyltransferase; Reviewed; Region: PRK05632 349106001143 DRTGG domain; Region: DRTGG; cl12147 349106001144 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 349106001145 acetate kinase; Region: ackA; TIGR00016 349106001146 Acetokinase family; Region: Acetate_kinase; cl01029 349106001147 diaminopimelate decarboxylase; Region: lysA; TIGR01048 349106001148 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 349106001149 active site 349106001150 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106001151 substrate binding site [chemical binding]; other site 349106001152 catalytic residues [active] 349106001153 dimer interface [polypeptide binding]; other site 349106001154 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 349106001155 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349106001156 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 349106001157 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 349106001158 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 349106001159 active site 349106001160 DNA binding site [nucleotide binding] 349106001161 Int/Topo IB signature motif; other site 349106001162 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 349106001163 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349106001164 active site 349106001165 catalytic triad [active] 349106001166 dimer interface [polypeptide binding]; other site 349106001167 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 349106001168 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 349106001169 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 349106001170 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 349106001171 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 A site; Region: RaiA; cd00552 349106001172 30S subunit binding site; other site 349106001173 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 349106001174 thiS-thiF/thiG interaction site; other site 349106001175 Protein of unknown function (DUF423); Region: DUF423; cl01008 349106001176 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 349106001177 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349106001178 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349106001179 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 349106001180 DNA binding residues [nucleotide binding] 349106001181 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 349106001182 CPxP motif; other site 349106001183 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 349106001184 Peptidase family M48; Region: Peptidase_M48; cl12018 349106001185 GatB domain; Region: GatB_Yqey; cl11497 349106001186 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 349106001187 Cytochrome c; Region: Cytochrom_C; cl11414 349106001188 UGMP family protein; Validated; Region: PRK09604 349106001189 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 349106001190 CrcB-like protein; Region: CRCB; cl09114 349106001191 Helix-turn-helix domains; Region: HTH; cl00088 349106001192 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 349106001193 putative dimerization interface [polypeptide binding]; other site 349106001194 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 349106001195 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 349106001196 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106001197 Probable transposase; Region: OrfB_IS605; pfam01385 349106001198 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106001199 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 349106001200 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349106001201 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 349106001202 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 349106001203 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 349106001204 GTP-binding protein LepA; Provisional; Region: PRK05433 349106001205 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 349106001206 G1 box; other site 349106001207 putative GEF interaction site [polypeptide binding]; other site 349106001208 GTP/Mg2+ binding site [chemical binding]; other site 349106001209 Switch I region; other site 349106001210 G2 box; other site 349106001211 G3 box; other site 349106001212 Switch II region; other site 349106001213 G4 box; other site 349106001214 G5 box; other site 349106001215 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 349106001216 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 349106001217 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 349106001218 signal peptidase I; Provisional; Region: PRK10861 349106001219 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 349106001220 Catalytic site [active] 349106001221 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 349106001222 ribonuclease III; Reviewed; Region: rnc; PRK00102 349106001223 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 349106001224 dimerization interface [polypeptide binding]; other site 349106001225 active site 349106001226 metal binding site [ion binding]; metal-binding site 349106001227 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 349106001228 dsRNA binding site [nucleotide binding]; other site 349106001229 GTPase Era; Reviewed; Region: era; PRK00089 349106001230 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 349106001231 G1 box; other site 349106001232 GTP/Mg2+ binding site [chemical binding]; other site 349106001233 Switch I region; other site 349106001234 G2 box; other site 349106001235 Switch II region; other site 349106001236 G3 box; other site 349106001237 G4 box; other site 349106001238 G5 box; other site 349106001239 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 349106001240 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 349106001241 Recombination protein O N terminal; Region: RecO_N; cl15812 349106001242 Recombination protein O C terminal; Region: RecO_C; pfam02565 349106001243 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 the...; Region: PNPsynthase; cd00003 349106001244 active site 349106001245 hydrophilic channel; other site 349106001246 dimerization interface [polypeptide binding]; other site 349106001247 catalytic residues [active] 349106001248 active site lid [active] 349106001249 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 349106001250 Type II transport protein GspH; Region: GspH; pfam12019 349106001251 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106001252 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106001253 ligand binding site [chemical binding]; other site 349106001254 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 349106001255 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 349106001256 G1 box; other site 349106001257 putative GEF interaction site [polypeptide binding]; other site 349106001258 GTP/Mg2+ binding site [chemical binding]; other site 349106001259 Switch I region; other site 349106001260 G2 box; other site 349106001261 G3 box; other site 349106001262 Switch II region; other site 349106001263 G4 box; other site 349106001264 G5 box; other site 349106001265 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 349106001266 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 349106001267 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 349106001268 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 349106001269 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 349106001270 DNA binding site [nucleotide binding] 349106001271 catalytic residue [active] 349106001272 H2TH interface [polypeptide binding]; other site 349106001273 putative catalytic residues [active] 349106001274 turnover-facilitating residue; other site 349106001275 intercalation triad [nucleotide binding]; other site 349106001276 8OG recognition residue [nucleotide binding]; other site 349106001277 putative reading head residues; other site 349106001278 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 349106001279 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 349106001280 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349106001281 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349106001282 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349106001283 synthetase active site [active] 349106001284 NTP binding site [chemical binding]; other site 349106001285 metal binding site [ion binding]; metal-binding site 349106001286 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 349106001287 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 349106001288 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 349106001289 TRAM domain; Region: TRAM; cl01282 349106001290 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 349106001291 S-adenosylmethionine binding site [chemical binding]; other site 349106001292 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 349106001293 active site 349106001294 catalytic site [active] 349106001295 substrate binding site [chemical binding]; other site 349106001296 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 349106001297 cysteine synthase B; Region: cysM; TIGR01138 349106001298 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 349106001299 dimer interface [polypeptide binding]; other site 349106001300 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001301 catalytic residue [active] 349106001302 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 349106001303 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 349106001304 dimer interface [polypeptide binding]; other site 349106001305 phosphorylation site [posttranslational modification] 349106001306 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 349106001307 ATP binding site [chemical binding]; other site 349106001308 Mg2+ binding site [ion binding]; other site 349106001309 G-X-G motif; other site 349106001310 Response regulator receiver domain; Region: Response_reg; pfam00072 349106001311 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 349106001312 active site 349106001313 phosphorylation site [posttranslational modification] 349106001314 intermolecular recognition site; other site 349106001315 dimerization interface [polypeptide binding]; other site 349106001316 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; cl00086 349106001317 enoyl-CoA hydratase; Provisional; Region: PRK07509 349106001318 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 349106001319 substrate binding site [chemical binding]; other site 349106001320 oxyanion hole (OAH) forming residues; other site 349106001321 trimer interface [polypeptide binding]; other site 349106001322 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 349106001323 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 349106001324 putative substrate translocation pore; other site 349106001325 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 349106001326 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 349106001327 P-loop; other site 349106001328 Magnesium ion binding site [ion binding]; other site 349106001329 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 349106001330 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 349106001331 active site 349106001332 interdomain interaction site; other site 349106001333 putative metal-binding site [ion binding]; other site 349106001334 nucleotide binding site [chemical binding]; other site 349106001335 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 349106001336 domain I; other site 349106001337 DNA binding groove [nucleotide binding] 349106001338 phosphate binding site [ion binding]; other site 349106001339 domain II; other site 349106001340 domain III; other site 349106001341 nucleotide binding site [chemical binding]; other site 349106001342 catalytic site [active] 349106001343 domain IV; other site 349106001344 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349106001345 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 349106001346 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 349106001347 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 349106001348 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 349106001349 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 349106001350 active site residue [active] 349106001351 Transglycosylase; Region: Transgly; cl07896 349106001352 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106001353 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106001354 Competence protein A; Region: Competence_A; pfam11104 349106001355 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 349106001356 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 349106001357 Pilus assembly protein, PilO; Region: PilO; cl01234 349106001358 Pilus assembly protein, PilP; Region: PilP; pfam04351 349106001359 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 349106001360 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 349106001361 Secretin and TonB N terminus short domain; Region: STN; cl06624 349106001362 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 349106001363 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 349106001364 shikimate kinase; Reviewed; Region: aroK; PRK00131 349106001365 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 349106001366 ADP binding site [chemical binding]; other site 349106001367 magnesium binding site [ion binding]; other site 349106001368 putative shikimate binding site; other site 349106001369 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 349106001370 active site 349106001371 dimer interface [polypeptide binding]; other site 349106001372 metal binding site [ion binding]; metal-binding site 349106001373 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 349106001374 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 349106001375 active site 349106001376 dimer interface [polypeptide binding]; other site 349106001377 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 349106001378 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 349106001379 active site 349106001380 FMN binding site [chemical binding]; other site 349106001381 substrate binding site [chemical binding]; other site 349106001382 3Fe-4S cluster binding site [ion binding]; other site 349106001383 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 349106001384 domain interface; other site 349106001385 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 349106001386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106001388 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 349106001389 active site clefts [active] 349106001390 zinc binding site [ion binding]; other site 349106001391 dimer interface [polypeptide binding]; other site 349106001392 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349106001393 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 349106001394 dimer interface [polypeptide binding]; other site 349106001395 active site 349106001396 metal binding site [ion binding]; metal-binding site 349106001397 glutathione binding site [chemical binding]; other site 349106001398 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106001399 Cytochrome C'; Region: Cytochrom_C_2; cl01610 349106001400 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 349106001401 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 349106001402 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 349106001403 dimerization interface [polypeptide binding]; other site 349106001404 active site 349106001405 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 349106001406 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 349106001407 TPP-binding site; other site 349106001408 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 349106001409 PYR/PP interface [polypeptide binding]; other site 349106001410 dimer interface [polypeptide binding]; other site 349106001411 TPP binding site [chemical binding]; other site 349106001412 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349106001413 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 349106001414 active site 349106001415 dimerization interface [polypeptide binding]; other site 349106001416 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 349106001417 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 349106001418 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 349106001419 putative active site [active] 349106001420 putative substrate binding site [chemical binding]; other site 349106001421 putative cosubstrate binding site; other site 349106001422 catalytic site [active] 349106001423 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106001424 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 349106001425 binding surface 349106001426 TPR motif; other site 349106001427 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106001428 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 349106001429 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 349106001430 GatB domain; Region: GatB_Yqey; cl11497 349106001431 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349106001432 Amidase; Region: Amidase; cl11426 349106001433 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 349106001434 rod shape-determining protein MreB; Provisional; Region: PRK13927 349106001435 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 349106001436 ATP binding site [chemical binding]; other site 349106001437 profilin binding site; other site 349106001438 rod shape-determining protein MreC; Region: MreC; pfam04085 349106001439 rod shape-determining protein MreD; Region: MreD; cl01087 349106001440 Maf-like protein; Region: Maf; pfam02545 349106001441 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 349106001442 active site 349106001443 dimer interface [polypeptide binding]; other site 349106001444 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 349106001445 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 349106001446 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 349106001447 ribonuclease G; Provisional; Region: PRK11712 349106001448 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 349106001449 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 349106001450 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 349106001451 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 349106001452 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 349106001453 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 349106001454 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 349106001455 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 349106001456 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 349106001457 putative translocon binding site; other site 349106001458 protein-rRNA interface [nucleotide binding]; other site 349106001459 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 349106001460 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 349106001461 G-X-X-G motif; other site 349106001462 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 349106001463 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 349106001464 23S rRNA interface [nucleotide binding]; other site 349106001465 5S rRNA interface [nucleotide binding]; other site 349106001466 putative antibiotic binding site [chemical binding]; other site 349106001467 L25 interface [polypeptide binding]; other site 349106001468 L27 interface [polypeptide binding]; other site 349106001469 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 349106001470 23S rRNA interface [nucleotide binding]; other site 349106001471 putative translocon interaction site; other site 349106001472 signal recognition particle (SRP54) interaction site; other site 349106001473 L23 interface [polypeptide binding]; other site 349106001474 trigger factor interaction site; other site 349106001475 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 349106001476 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 349106001477 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 349106001478 KOW motif; Region: KOW; cl00354 349106001479 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 349106001480 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 349106001481 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 349106001482 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 349106001483 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 349106001484 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 349106001485 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349106001486 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 349106001487 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 349106001488 5S rRNA interface [nucleotide binding]; other site 349106001489 23S rRNA interface [nucleotide binding]; other site 349106001490 L5 interface [polypeptide binding]; other site 349106001491 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 349106001492 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 349106001493 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 349106001494 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 349106001495 23S rRNA binding site [nucleotide binding]; other site 349106001496 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 349106001497 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 349106001498 SecY translocase; Region: SecY; pfam00344 349106001499 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 349106001500 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 349106001501 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 349106001502 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 349106001503 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 349106001504 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 349106001505 RNA binding surface [nucleotide binding]; other site 349106001506 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 349106001507 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 349106001508 alphaNTD homodimer interface [polypeptide binding]; other site 349106001509 alphaNTD - beta interaction site [polypeptide binding]; other site 349106001510 alphaNTD - beta' interaction site [polypeptide binding]; other site 349106001511 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 349106001512 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 349106001513 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 349106001514 Protein of unknown function, DUF462; Region: DUF462; cl01190 349106001515 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 349106001516 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 349106001517 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 349106001518 Acyl transferase domain; Region: Acyl_transf_1; cl08282 349106001519 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 349106001520 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 349106001521 NAD(P) binding site [chemical binding]; other site 349106001522 homotetramer interface [polypeptide binding]; other site 349106001523 homodimer interface [polypeptide binding]; other site 349106001524 active site 349106001525 Phosphopantetheine attachment site; Region: PP-binding; cl09936 349106001526 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 349106001527 BON domain; Region: BON; cl02771 349106001528 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106001529 putative peptidoglycan binding site; other site 349106001530 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 349106001531 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 349106001532 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 349106001533 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 349106001534 putative substrate binding site [chemical binding]; other site 349106001535 putative ATP binding site [chemical binding]; other site 349106001536 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 349106001537 nudix motif; other site 349106001538 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 349106001539 putative active site [active] 349106001540 putative CoA binding site [chemical binding]; other site 349106001541 nudix motif; other site 349106001542 metal binding site [ion binding]; metal-binding site 349106001543 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 349106001544 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 349106001545 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349106001546 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349106001547 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349106001548 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 349106001549 Walker A/P-loop; other site 349106001550 ATP binding site [chemical binding]; other site 349106001551 Q-loop/lid; other site 349106001552 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 349106001553 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 349106001554 Q-loop/lid; other site 349106001555 ABC transporter signature motif; other site 349106001556 Walker B; other site 349106001557 D-loop; other site 349106001558 H-loop/switch region; other site 349106001559 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 349106001560 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 349106001561 FtsZ protein binding site [polypeptide binding]; other site 349106001562 short chain dehydrogenase; Provisional; Region: PRK08251 349106001563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001564 NAD(P) binding site [chemical binding]; other site 349106001565 active site 349106001566 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 349106001567 catalytic core [active] 349106001568 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 349106001569 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 349106001570 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 349106001571 putative active site [active] 349106001572 putative substrate binding site [chemical binding]; other site 349106001573 ATP binding site [chemical binding]; other site 349106001574 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349106001575 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106001576 active site 349106001577 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 349106001578 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 349106001579 nucleotide binding pocket [chemical binding]; other site 349106001580 K-X-D-G motif; other site 349106001581 catalytic site [active] 349106001582 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 349106001583 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 349106001584 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 349106001585 Dimer interface [polypeptide binding]; other site 349106001586 BRCT sequence motif; other site 349106001587 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 349106001588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001590 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 349106001591 homotrimer interaction site [polypeptide binding]; other site 349106001592 putative active site [active] 349106001593 von Willebrand factor; Region: vWF_A; pfam12450 349106001594 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 349106001595 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 349106001596 metal ion-dependent adhesion site (MIDAS); other site 349106001597 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 349106001598 Protein of unknown function (DUF808); Region: DUF808; cl01002 349106001599 ribonuclease E; Reviewed; Region: rne; PRK10811 349106001600 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 349106001601 homodimer interface [polypeptide binding]; other site 349106001602 oligonucleotide binding site [chemical binding]; other site 349106001603 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK13108 349106001604 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 349106001605 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; cl09940 349106001606 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349106001607 active site 349106001608 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 349106001609 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 349106001610 motif II; other site 349106001611 UbiA prenyltransferase family; Region: UbiA; cl00337 349106001612 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 349106001613 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 349106001614 elongation factor P; Validated; Region: PRK00529 349106001615 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 349106001616 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 349106001617 RNA binding site [nucleotide binding]; other site 349106001618 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 349106001619 RNA binding site [nucleotide binding]; other site 349106001620 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; cl15377 349106001621 Cytochrome c; Region: Cytochrom_C; cl11414 349106001622 Peptidase family M23; Region: Peptidase_M23; pfam01551 349106001623 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 349106001624 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106001625 active site 349106001626 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 349106001627 hypothetical protein; Reviewed; Region: PRK00024 349106001628 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 349106001629 MPN+ (JAMM) motif; other site 349106001630 Zinc-binding site [ion binding]; other site 349106001631 Flavoprotein; Region: Flavoprotein; cl08021 349106001632 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 349106001633 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 349106001634 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 349106001635 dimer interface [polypeptide binding]; other site 349106001636 FMN binding site [chemical binding]; other site 349106001637 NADPH bind site [chemical binding]; other site 349106001638 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349106001639 endonuclease III; Region: ENDO3c; smart00478 349106001640 minor groove reading motif; other site 349106001641 helix-hairpin-helix signature motif; other site 349106001642 substrate binding pocket [chemical binding]; other site 349106001643 active site 349106001644 Predicted methyltransferases [General function prediction only]; Region: COG0313 349106001645 Restriction endonuclease; Region: Mrr_cat; cl00516 349106001646 outer membrane lipoprotein; Provisional; Region: PRK11023 349106001647 BON domain; Region: BON; cl02771 349106001648 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 349106001649 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; cl12031 349106001650 substrate binding pocket [chemical binding]; other site 349106001651 BolA-like protein; Region: BolA; cl00386 349106001652 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 349106001653 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 349106001654 hinge; other site 349106001655 active site 349106001656 ATP phosphoribosyltransferase; Region: HisG; cl15266 349106001657 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 349106001658 histidinol dehydrogenase; Region: hisD; TIGR00069 349106001659 NAD binding site [chemical binding]; other site 349106001660 dimerization interface [polypeptide binding]; other site 349106001661 product binding site; other site 349106001662 substrate binding site [chemical binding]; other site 349106001663 zinc binding site [ion binding]; other site 349106001664 catalytic residues [active] 349106001665 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 349106001666 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 349106001667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001668 homodimer interface [polypeptide binding]; other site 349106001669 catalytic residue [active] 349106001670 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 349106001671 chorismate binding enzyme; Region: Chorismate_bind; cl10555 349106001672 EcsC protein family; Region: EcsC; pfam12787 349106001673 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 349106001674 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 349106001675 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 349106001676 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 349106001677 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 349106001678 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 349106001679 MatE; Region: MatE; cl10513 349106001680 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349106001681 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 349106001682 amidase catalytic site [active] 349106001683 Zn binding residues [ion binding]; other site 349106001684 substrate binding site [chemical binding]; other site 349106001685 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 349106001686 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106001687 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; cl12031 349106001688 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 349106001689 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 349106001690 putative NAD(P) binding site [chemical binding]; other site 349106001691 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 349106001692 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106001693 active site 349106001694 glutathione synthetase; Provisional; Region: PRK05246 349106001695 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 349106001696 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106001697 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 349106001698 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 349106001699 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 349106001700 active site 349106001701 homodimer interface [polypeptide binding]; other site 349106001702 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 349106001703 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 349106001704 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106001705 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 349106001706 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 349106001707 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 349106001708 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106001709 Cell division protein FtsQ; Region: FtsQ; pfam03799 349106001710 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 349106001711 Cell division protein FtsA; Region: FtsA; cl11496 349106001712 Cell division protein FtsA; Region: FtsA; cl11496 349106001713 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 349106001714 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 349106001715 nucleotide binding site [chemical binding]; other site 349106001716 SulA interaction site; other site 349106001717 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 349106001718 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 349106001719 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 349106001720 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 349106001721 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 349106001722 S-adenosylmethionine binding site [chemical binding]; other site 349106001723 FtsH Extracellular; Region: FtsH_ext; pfam06480 349106001724 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 349106001725 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 349106001726 Walker A motif; other site 349106001727 ATP binding site [chemical binding]; other site 349106001728 Walker B motif; other site 349106001729 arginine finger; other site 349106001730 Peptidase family M41; Region: Peptidase_M41; pfam01434 349106001731 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 349106001732 dihydropteroate synthase; Region: DHPS; TIGR01496 349106001733 substrate binding pocket [chemical binding]; other site 349106001734 dimer interface [polypeptide binding]; other site 349106001735 inhibitor binding site; inhibition site 349106001736 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 349106001737 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 349106001738 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 349106001739 Bacitracin resistance protein BacA; Region: BacA; cl00858 349106001740 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; cl16911 349106001741 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349106001742 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 349106001743 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 349106001744 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 349106001745 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 349106001746 dimerization interface [polypeptide binding]; other site 349106001747 ATP binding site [chemical binding]; other site 349106001748 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 349106001749 dimerization interface [polypeptide binding]; other site 349106001750 ATP binding site [chemical binding]; other site 349106001751 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 349106001752 putative active site [active] 349106001753 catalytic triad [active] 349106001754 Peptidase family M48; Region: Peptidase_M48; cl12018 349106001755 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 349106001756 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 349106001757 amidase catalytic site [active] 349106001758 Zn binding residues [ion binding]; other site 349106001759 substrate binding site [chemical binding]; other site 349106001760 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349106001761 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 349106001762 Protein of unknown function (DUF421); Region: DUF421; cl00990 349106001763 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106001764 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349106001765 active site 349106001766 catalytic site [active] 349106001767 substrate binding site [chemical binding]; other site 349106001768 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 349106001769 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 349106001770 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106001771 metal binding triad; other site 349106001772 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 349106001773 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 349106001774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106001775 homodimer interface [polypeptide binding]; other site 349106001776 catalytic residue [active] 349106001777 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 349106001778 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106001779 metal binding triad; other site 349106001780 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349106001781 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349106001782 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 349106001783 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 349106001784 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 349106001785 active site 349106001786 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 349106001787 rRNA interaction site [nucleotide binding]; other site 349106001788 S8 interaction site; other site 349106001789 putative laminin-1 binding site; other site 349106001790 elongation factor Ts; Provisional; Region: tsf; PRK09377 349106001791 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 349106001792 Elongation factor TS; Region: EF_TS; pfam00889 349106001793 Elongation factor TS; Region: EF_TS; pfam00889 349106001794 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 349106001795 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 349106001796 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 349106001797 EamA-like transporter family; Region: EamA; cl01037 349106001798 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 349106001799 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 349106001800 catalytic residues [active] 349106001801 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 349106001802 Predicted amidohydrolase [General function prediction only]; Region: COG0388 349106001803 putative active site [active] 349106001804 catalytic triad [active] 349106001805 putative dimer interface [polypeptide binding]; other site 349106001806 Sensors of blue-light using FAD; Region: BLUF; cl04855 349106001807 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 349106001808 FAD binding domain; Region: FAD_binding_4; pfam01565 349106001809 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 349106001810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001811 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 349106001812 L-serine binding site [chemical binding]; other site 349106001813 ACT domain interface; other site 349106001814 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106001815 Cation efflux family; Region: Cation_efflux; cl00316 349106001816 primosome assembly protein PriA; Validated; Region: PRK05580 349106001817 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 349106001818 ATP binding site [chemical binding]; other site 349106001819 putative Mg++ binding site [ion binding]; other site 349106001820 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106001821 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 349106001822 homotrimer interaction site [polypeptide binding]; other site 349106001823 putative active site [active] 349106001824 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 349106001825 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349106001826 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 349106001827 synthetase active site [active] 349106001828 NTP binding site [chemical binding]; other site 349106001829 metal binding site [ion binding]; metal-binding site 349106001830 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 349106001831 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 349106001832 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 349106001833 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 349106001834 catalytic site [active] 349106001835 G-X2-G-X-G-K; other site 349106001836 LytB protein; Region: LYTB; cl00507 349106001837 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 349106001838 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 349106001839 heat shock protein 90; Provisional; Region: PRK05218 349106001840 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 349106001841 ATP binding site [chemical binding]; other site 349106001842 Mg2+ binding site [ion binding]; other site 349106001843 G-X-G motif; other site 349106001844 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 349106001845 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 349106001846 active site 349106001847 AMP-binding domain protein; Validated; Region: PRK08315 349106001848 AMP-binding enzyme; Region: AMP-binding; cl15778 349106001849 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106001850 Predicted esterase [General function prediction only]; Region: COG0627 349106001851 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; cl12031 349106001852 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 349106001853 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 349106001854 substrate binding site [chemical binding]; other site 349106001855 hexamer interface [polypeptide binding]; other site 349106001856 metal binding site [ion binding]; metal-binding site 349106001857 transcription termination factor NusA; Region: NusA; TIGR01953 349106001858 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 349106001859 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 349106001860 muropeptide transporter; Validated; Region: ampG; PRK11010 349106001861 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 349106001862 signal recognition particle protein; Provisional; Region: PRK10867 349106001863 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 349106001864 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 349106001865 P loop; other site 349106001866 GTP binding site [chemical binding]; other site 349106001867 Signal peptide binding domain; Region: SRP_SPB; pfam02978 349106001868 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 349106001869 metabolite-proton symporter; Region: 2A0106; TIGR00883 349106001870 putative substrate translocation pore; other site 349106001871 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 349106001872 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 349106001873 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 349106001874 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 349106001875 substrate binding pocket [chemical binding]; other site 349106001876 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 349106001877 B12 binding site [chemical binding]; other site 349106001878 cobalt ligand [ion binding]; other site 349106001879 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 349106001880 Fasciclin domain; Region: Fasciclin; cl02663 349106001881 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 349106001882 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 349106001883 LemA family; Region: LemA; cl00742 349106001884 Repair protein; Region: Repair_PSII; cl01535 349106001885 Repair protein; Region: Repair_PSII; cl01535 349106001886 NAD-dependent deacetylase; Provisional; Region: PRK00481 349106001887 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 349106001888 NAD+ binding site [chemical binding]; other site 349106001889 substrate binding site [chemical binding]; other site 349106001890 Zn binding site [ion binding]; other site 349106001891 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106001892 Probable transposase; Region: OrfB_IS605; pfam01385 349106001893 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106001894 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 349106001895 Cytochrome c; Region: Cytochrom_C; cl11414 349106001896 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 349106001897 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106001898 Walker A/P-loop; other site 349106001899 ATP binding site [chemical binding]; other site 349106001900 Q-loop/lid; other site 349106001901 ABC transporter signature motif; other site 349106001902 Walker B; other site 349106001903 D-loop; other site 349106001904 H-loop/switch region; other site 349106001905 ABC-2 type transporter; Region: ABC2_membrane; cl11417 349106001906 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 349106001907 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 349106001908 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 349106001909 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349106001910 PYR/PP interface [polypeptide binding]; other site 349106001911 dimer interface [polypeptide binding]; other site 349106001912 TPP binding site [chemical binding]; other site 349106001913 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 349106001914 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 349106001915 TPP-binding site [chemical binding]; other site 349106001916 dimer interface [polypeptide binding]; other site 349106001917 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 349106001918 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 349106001919 putative valine binding site [chemical binding]; other site 349106001920 dimer interface [polypeptide binding]; other site 349106001921 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 349106001922 ketol-acid reductoisomerase; Provisional; Region: PRK05479 349106001923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001924 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 349106001925 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 protein; Region: CSP_CDS; cd04458 349106001926 DNA-binding site [nucleotide binding]; DNA binding site 349106001927 RNA-binding motif; other site 349106001928 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 349106001929 Ligand binding site [chemical binding]; other site 349106001930 Electron transfer flavoprotein domain; Region: ETF; pfam01012 349106001931 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 349106001932 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 349106001933 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 349106001934 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349106001935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106001936 Coenzyme A binding pocket [chemical binding]; other site 349106001937 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 349106001938 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 349106001939 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106001940 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106001941 thioredoxin reductase; Provisional; Region: PRK10262 349106001942 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106001943 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 349106001944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106001945 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 349106001946 Pirin-related protein [General function prediction only]; Region: COG1741 349106001947 Cupin domain; Region: Cupin_2; cl09118 349106001948 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 349106001949 Amidase; Region: Amidase; cl11426 349106001950 HI0933-like protein; Region: HI0933_like; pfam03486 349106001951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001953 acetyl-CoA synthetase; Provisional; Region: PRK00174 349106001954 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 349106001955 AMP-binding enzyme; Region: AMP-binding; cl15778 349106001956 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106001957 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 349106001958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106001959 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106001960 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106001961 Probable transposase; Region: OrfB_IS605; pfam01385 349106001962 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106001963 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 349106001964 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 349106001965 active site 349106001966 Riboflavin kinase; Region: Flavokinase; cl03312 349106001967 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 349106001968 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106001969 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349106001970 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 349106001971 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 349106001972 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349106001973 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 349106001974 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 349106001975 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 349106001976 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 349106001977 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 349106001978 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 349106001979 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 349106001980 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 349106001981 Protein of unknown function (DUF328); Region: DUF328; cl01143 349106001982 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 349106001983 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 349106001984 ring oligomerisation interface [polypeptide binding]; other site 349106001985 ATP/Mg binding site [chemical binding]; other site 349106001986 stacking interactions; other site 349106001987 hinge regions; other site 349106001988 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 349106001989 oligomerisation interface [polypeptide binding]; other site 349106001990 mobile loop; other site 349106001991 roof hairpin; other site 349106001992 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 349106001993 active site 349106001994 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 349106001995 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 349106001996 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 349106001997 metal binding site [ion binding]; metal-binding site 349106001998 dimer interface [polypeptide binding]; other site 349106001999 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 349106002000 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 349106002001 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 349106002002 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 349106002003 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 349106002004 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002005 NAD(P) binding site [chemical binding]; other site 349106002006 active site 349106002007 OsmC-like protein; Region: OsmC; cl00767 349106002008 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; cl16911 349106002009 potassium/proton antiporter; Reviewed; Region: PRK05326 349106002010 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 349106002011 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349106002012 ABC-2 type transporter; Region: ABC2_membrane; cl11417 349106002013 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 349106002014 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 349106002015 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 349106002016 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 349106002017 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 349106002018 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 349106002019 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 349106002020 tetramer interface [polypeptide binding]; other site 349106002021 heme binding pocket [chemical binding]; other site 349106002022 NADPH binding site [chemical binding]; other site 349106002023 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 349106002024 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 349106002025 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106002026 Walker A/P-loop; other site 349106002027 ATP binding site [chemical binding]; other site 349106002028 Q-loop/lid; other site 349106002029 ABC transporter signature motif; other site 349106002030 Walker B; other site 349106002031 D-loop; other site 349106002032 H-loop/switch region; other site 349106002033 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 349106002034 ABC-ATPase subunit interface; other site 349106002035 dimer interface [polypeptide binding]; other site 349106002036 putative PBP binding regions; other site 349106002037 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 349106002038 ABC-ATPase subunit interface; other site 349106002039 dimer interface [polypeptide binding]; other site 349106002040 putative PBP binding regions; other site 349106002041 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 349106002042 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 349106002043 putative ligand binding residues [chemical binding]; other site 349106002044 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 349106002045 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 349106002046 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 349106002047 transcriptional regulator NarL; Provisional; Region: PRK10651 349106002048 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 349106002049 active site 349106002050 phosphorylation site [posttranslational modification] 349106002051 intermolecular recognition site; other site 349106002052 dimerization interface [polypeptide binding]; other site 349106002053 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 349106002054 DNA binding residues [nucleotide binding] 349106002055 dimerization interface [polypeptide binding]; other site 349106002056 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 349106002057 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 349106002058 Histidine kinase; Region: HisKA_3; pfam07730 349106002059 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 349106002060 ATP binding site [chemical binding]; other site 349106002061 Mg2+ binding site [ion binding]; other site 349106002062 G-X-G motif; other site 349106002063 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 349106002064 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 349106002065 putative substrate translocation pore; other site 349106002066 nitrate reductase, beta subunit; Region: narH; TIGR01660 349106002067 4Fe-4S binding domain; Region: Fer4; cl02805 349106002068 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 349106002069 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 349106002070 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 349106002071 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 349106002072 heme-binding site [chemical binding]; other site 349106002073 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 349106002074 FAD binding pocket [chemical binding]; other site 349106002075 FAD binding motif [chemical binding]; other site 349106002076 phosphate binding motif [ion binding]; other site 349106002077 beta-alpha-beta structure motif; other site 349106002078 NAD binding pocket [chemical binding]; other site 349106002079 Heme binding pocket [chemical binding]; other site 349106002080 nitrogen fixation protein NifM; Region: nifM_nitrog; TIGR02933 349106002081 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349106002082 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 349106002083 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 349106002084 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 349106002085 ArsC family; Region: ArsC; pfam03960 349106002086 catalytic residues [active] 349106002087 FeoA domain; Region: FeoA; cl00838 349106002088 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 349106002089 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 349106002090 G1 box; other site 349106002091 GTP/Mg2+ binding site [chemical binding]; other site 349106002092 Switch I region; other site 349106002093 G2 box; other site 349106002094 G3 box; other site 349106002095 Switch II region; other site 349106002096 G4 box; other site 349106002097 G5 box; other site 349106002098 Nucleoside recognition; Region: Gate; cl00486 349106002099 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 349106002100 Nucleoside recognition; Region: Gate; cl00486 349106002101 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 349106002102 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 349106002103 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106002104 putative GSH binding site (G-site) [chemical binding]; other site 349106002105 active site cysteine [active] 349106002106 putative C-terminal domain interface [polypeptide binding]; other site 349106002107 putative dimer interface [polypeptide binding]; other site 349106002108 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 349106002109 putative N-terminal domain interface [polypeptide binding]; other site 349106002110 putative dimer interface [polypeptide binding]; other site 349106002111 putative substrate binding pocket (H-site) [chemical binding]; other site 349106002112 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106002113 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 349106002114 Walker A/P-loop; other site 349106002115 ATP binding site [chemical binding]; other site 349106002116 Q-loop/lid; other site 349106002117 ABC transporter signature motif; other site 349106002118 Walker B; other site 349106002119 D-loop; other site 349106002120 H-loop/switch region; other site 349106002121 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106002122 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 349106002123 dimer interface [polypeptide binding]; other site 349106002124 conserved gate region; other site 349106002125 putative PBP binding loops; other site 349106002126 ABC-ATPase subunit interface; other site 349106002127 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 349106002128 dimer interface [polypeptide binding]; other site 349106002129 conserved gate region; other site 349106002130 putative PBP binding loops; other site 349106002131 ABC-ATPase subunit interface; other site 349106002132 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 349106002133 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106002134 substrate binding pocket [chemical binding]; other site 349106002135 membrane-bound complex binding site; other site 349106002136 hinge residues; other site 349106002137 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 349106002138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002139 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349106002140 Helix-turn-helix domains; Region: HTH; cl00088 349106002141 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 349106002142 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 349106002143 active site 349106002144 DNA binding site [nucleotide binding] 349106002145 Int/Topo IB signature motif; other site 349106002146 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 349106002147 reactive center loop; other site 349106002148 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 349106002149 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 349106002150 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 349106002151 FAD binding pocket [chemical binding]; other site 349106002152 FAD binding motif [chemical binding]; other site 349106002153 phosphate binding motif [ion binding]; other site 349106002154 beta-alpha-beta structure motif; other site 349106002155 NAD binding pocket [chemical binding]; other site 349106002156 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 349106002157 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 349106002158 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 349106002159 active site 349106002160 phosphorylation site [posttranslational modification] 349106002161 intermolecular recognition site; other site 349106002162 dimerization interface [polypeptide binding]; other site 349106002163 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 349106002164 DNA binding site [nucleotide binding] 349106002165 sensor protein QseC; Provisional; Region: PRK10337 349106002166 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 349106002167 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 349106002168 dimer interface [polypeptide binding]; other site 349106002169 phosphorylation site [posttranslational modification] 349106002170 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 349106002171 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 349106002172 ATP binding site [chemical binding]; other site 349106002173 Mg2+ binding site [ion binding]; other site 349106002174 G-X-G motif; other site 349106002175 ApbE family; Region: ApbE; cl00643 349106002176 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 349106002177 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 349106002178 Cation efflux family; Region: Cation_efflux; cl00316 349106002179 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106002180 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106002181 DDE superfamily endonuclease; Region: DDE_4; cl15789 349106002182 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349106002183 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 349106002184 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 349106002185 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 349106002186 dimer interface [polypeptide binding]; other site 349106002187 phosphorylation site [posttranslational modification] 349106002188 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 349106002189 ATP binding site [chemical binding]; other site 349106002190 Mg2+ binding site [ion binding]; other site 349106002191 G-X-G motif; other site 349106002192 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 349106002193 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 349106002194 active site 349106002195 phosphorylation site [posttranslational modification] 349106002196 intermolecular recognition site; other site 349106002197 dimerization interface [polypeptide binding]; other site 349106002198 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 349106002199 DNA binding site [nucleotide binding] 349106002200 Cytochrome c; Region: Cytochrom_C; cl11414 349106002201 Protein of unknown function, DUF; Region: DUF411; cl01142 349106002202 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 349106002203 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349106002204 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349106002205 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 349106002206 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 349106002207 Domain of unknown function (DUF305); Region: DUF305; cl15795 349106002208 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349106002209 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349106002210 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349106002211 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349106002212 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349106002213 Polycystin cation channel protein; Provisional; Region: PLN03223 349106002214 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 349106002215 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 349106002216 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 349106002217 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 349106002218 catalytic residues [active] 349106002219 catalytic nucleophile [active] 349106002220 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 349106002221 DNA-binding interface [nucleotide binding]; DNA binding site 349106002222 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349106002223 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 349106002224 conserved cys residue [active] 349106002225 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349106002226 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 349106002227 Isochorismatase family; Region: Isochorismatase; pfam00857 349106002228 catalytic triad [active] 349106002229 conserved cis-peptide bond; other site 349106002230 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106002231 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 349106002232 Fic family protein [Function unknown]; Region: COG3177 349106002233 Fic/DOC family; Region: Fic; cl00960 349106002234 Helix-turn-helix domains; Region: HTH; cl00088 349106002235 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 349106002236 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 349106002237 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 349106002238 active site 349106002239 DNA binding site [nucleotide binding] 349106002240 Int/Topo IB signature motif; other site 349106002241 Helix-turn-helix domains; Region: HTH; cl00088 349106002242 putative transposase OrfB; Reviewed; Region: PHA02517 349106002243 HTH-like domain; Region: HTH_21; pfam13276 349106002244 Integrase core domain; Region: rve; cl01316 349106002245 Integrase core domain; Region: rve_3; cl15866 349106002246 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 349106002247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349106002248 DNA-binding site [nucleotide binding]; DNA binding site 349106002249 UTRA domain; Region: UTRA; cl01230 349106002250 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349106002251 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349106002252 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 349106002253 maleylacetoacetate isomerase; Region: maiA; TIGR01262 349106002254 C-terminal domain interface [polypeptide binding]; other site 349106002255 GSH binding site (G-site) [chemical binding]; other site 349106002256 putative dimer interface [polypeptide binding]; other site 349106002257 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 349106002258 dimer interface [polypeptide binding]; other site 349106002259 N-terminal domain interface [polypeptide binding]; other site 349106002260 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 349106002261 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106002262 Helix-turn-helix domains; Region: HTH; cl00088 349106002263 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106002264 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 349106002265 Helix-turn-helix domains; Region: HTH; cl00088 349106002266 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 349106002267 substrate binding pocket [chemical binding]; other site 349106002268 dimerization interface [polypeptide binding]; other site 349106002269 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 349106002270 Cupin domain; Region: Cupin_2; cl09118 349106002271 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 349106002272 maleylacetoacetate isomerase; Region: maiA; TIGR01262 349106002273 C-terminal domain interface [polypeptide binding]; other site 349106002274 GSH binding site (G-site) [chemical binding]; other site 349106002275 putative dimer interface [polypeptide binding]; other site 349106002276 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 349106002277 dimer interface [polypeptide binding]; other site 349106002278 N-terminal domain interface [polypeptide binding]; other site 349106002279 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 349106002280 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 349106002281 benzoate transport; Region: 2A0115; TIGR00895 349106002282 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 349106002283 putative substrate translocation pore; other site 349106002284 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 349106002285 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106002286 Pseudomonas putida aldehyde dehydrogenase PsfA (ACA09737)-like; Region: ALDH_PsfA-ACA09737; cd07120 349106002287 NAD(P) binding site [chemical binding]; other site 349106002288 catalytic residues [active] 349106002289 benzoylformate decarboxylase; Reviewed; Region: PRK07092 349106002290 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349106002291 PYR/PP interface [polypeptide binding]; other site 349106002292 dimer interface [polypeptide binding]; other site 349106002293 TPP binding site [chemical binding]; other site 349106002294 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 349106002295 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 349106002296 TPP-binding site [chemical binding]; other site 349106002297 dimer interface [polypeptide binding]; other site 349106002298 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 349106002299 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 349106002300 ABC-ATPase subunit interface; other site 349106002301 dimer interface [polypeptide binding]; other site 349106002302 putative PBP binding regions; other site 349106002303 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 349106002304 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 349106002305 intersubunit interface [polypeptide binding]; other site 349106002306 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349106002307 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106002308 Walker A/P-loop; other site 349106002309 ATP binding site [chemical binding]; other site 349106002310 Q-loop/lid; other site 349106002311 ABC transporter signature motif; other site 349106002312 Walker B; other site 349106002313 D-loop; other site 349106002314 H-loop/switch region; other site 349106002315 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 349106002316 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 349106002317 Cation transport protein; Region: TrkH; cl10514 349106002318 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 349106002319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002320 prolyl-tRNA synthetase; Provisional; Region: PRK09194 349106002321 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 formation of...; Region: ProRS_core_prok; cd00779 349106002322 dimer interface [polypeptide binding]; other site 349106002323 motif 1; other site 349106002324 active site 349106002325 motif 2; other site 349106002326 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 349106002327 putative deacylase active site [active] 349106002328 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 attaches...; Region: class_II_aaRS-like_core; cl00268 349106002329 active site 349106002330 motif 3; other site 349106002331 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 349106002332 anticodon binding site; other site 349106002333 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 349106002334 DNA photolyase; Region: DNA_photolyase; pfam00875 349106002335 deoxyribodipyrimidine photo-lyase, 8-HDF type; Region: photolyase_8HDF; TIGR03556 349106002336 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 349106002337 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 monomeric; Region: PRAI; cd00405 349106002338 active site 349106002339 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 349106002340 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 349106002341 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002342 catalytic residue [active] 349106002343 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 349106002344 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 349106002345 substrate binding site [chemical binding]; other site 349106002346 active site 349106002347 catalytic residues [active] 349106002348 heterodimer interface [polypeptide binding]; other site 349106002349 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 349106002350 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349106002351 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 349106002352 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 349106002353 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 349106002354 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 349106002355 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349106002356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106002357 Walker A/P-loop; other site 349106002358 ATP binding site [chemical binding]; other site 349106002359 Q-loop/lid; other site 349106002360 ABC transporter signature motif; other site 349106002361 Walker B; other site 349106002362 D-loop; other site 349106002363 H-loop/switch region; other site 349106002364 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 349106002365 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 349106002366 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 349106002367 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 349106002368 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106002369 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 349106002370 NAD(P) binding site [chemical binding]; other site 349106002371 catalytic residues [active] 349106002372 Helix-turn-helix domains; Region: HTH; cl00088 349106002373 Rrf2 family protein; Region: rrf2_super; TIGR00738 349106002374 NnrS protein; Region: NnrS; cl01258 349106002375 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 349106002376 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 349106002377 ATP binding site [chemical binding]; other site 349106002378 substrate interface [chemical binding]; other site 349106002379 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106002380 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 349106002381 active site 349106002382 trimer interface [polypeptide binding]; other site 349106002383 dimer interface [polypeptide binding]; other site 349106002384 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 protein; Region: CSP_CDS; cd04458 349106002385 DNA-binding site [nucleotide binding]; DNA binding site 349106002386 RNA-binding motif; other site 349106002387 helicase 45; Provisional; Region: PTZ00424 349106002388 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 349106002389 ATP binding site [chemical binding]; other site 349106002390 Mg++ binding site [ion binding]; other site 349106002391 motif III; other site 349106002392 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 349106002393 nucleotide binding region [chemical binding]; other site 349106002394 ATP-binding site [chemical binding]; other site 349106002395 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 349106002396 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 349106002397 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 349106002398 putative active site [active] 349106002399 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 349106002400 FAD binding domain; Region: FAD_binding_4; pfam01565 349106002401 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 349106002402 Low molecular weight phosphatase family; Region: LMWPc; cd00115 349106002403 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349106002404 active site 349106002405 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 349106002406 RNA binding surface [nucleotide binding]; other site 349106002407 Gram-negative bacterial tonB protein; Region: TonB; cl10048 349106002408 threonine dehydratase; Reviewed; Region: PRK09224 349106002409 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 349106002410 tetramer interface [polypeptide binding]; other site 349106002411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002412 catalytic residue [active] 349106002413 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 349106002414 putative Ile/Val binding site [chemical binding]; other site 349106002415 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 349106002416 putative Ile/Val binding site [chemical binding]; other site 349106002417 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 349106002418 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349106002419 active site 349106002420 dimer interface [polypeptide binding]; other site 349106002421 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 349106002422 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; cl12031 349106002423 ornithine carbamoyltransferase; Provisional; Region: PRK00779 349106002424 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349106002425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002426 alanine racemase; Reviewed; Region: alr; PRK00053 349106002427 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 349106002428 active site 349106002429 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106002430 substrate binding site [chemical binding]; other site 349106002431 catalytic residues [active] 349106002432 dimer interface [polypeptide binding]; other site 349106002433 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 349106002434 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106002435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 349106002436 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 349106002437 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 349106002438 S-adenosylmethionine binding site [chemical binding]; other site 349106002439 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; cl16911 349106002440 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 349106002441 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 349106002442 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106002443 active site 349106002444 Phosphate transporter family; Region: PHO4; cl00396 349106002445 Phosphate transporter family; Region: PHO4; cl00396 349106002446 Domain of unknown function (DUF697); Region: DUF697; cl12064 349106002447 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 349106002448 DHH family; Region: DHH; pfam01368 349106002449 DHHA1 domain; Region: DHHA1; pfam02272 349106002450 Predicted membrane protein [Function unknown]; Region: COG2860 349106002451 UPF0126 domain; Region: UPF0126; pfam03458 349106002452 UPF0126 domain; Region: UPF0126; pfam03458 349106002453 Stringent starvation protein B; Region: SspB; cl01120 349106002454 glutathione S-transferase; Provisional; Region: PRK15113 349106002455 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106002456 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106002457 N-terminal domain interface [polypeptide binding]; other site 349106002458 dimer interface [polypeptide binding]; other site 349106002459 substrate binding pocket (H-site) [chemical binding]; other site 349106002460 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 349106002461 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 349106002462 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 349106002463 Qi binding site; other site 349106002464 intrachain domain interface; other site 349106002465 interchain domain interface [polypeptide binding]; other site 349106002466 heme bH binding site [chemical binding]; other site 349106002467 heme bL binding site [chemical binding]; other site 349106002468 Qo binding site; other site 349106002469 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 349106002470 interchain domain interface [polypeptide binding]; other site 349106002471 intrachain domain interface; other site 349106002472 Qi binding site; other site 349106002473 Qo binding site; other site 349106002474 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 349106002475 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 349106002476 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 349106002477 [2Fe-2S] cluster binding site [ion binding]; other site 349106002478 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 349106002479 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 349106002480 23S rRNA interface [nucleotide binding]; other site 349106002481 L3 interface [polypeptide binding]; other site 349106002482 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; cl16911 349106002483 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 349106002484 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 349106002485 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106002486 probable cinnamyl alcohol dehydrogenase; Region: PLN02586 349106002487 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 349106002488 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 349106002489 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 349106002490 catalytic residues [active] 349106002491 central insert; other site 349106002492 Cytochrome C biogenesis protein; Region: CcmH; cl01179 349106002493 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 349106002494 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 349106002495 adenylate kinase; Reviewed; Region: adk; PRK00279 349106002496 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 349106002497 AMP-binding site [chemical binding]; other site 349106002498 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 349106002499 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 349106002500 SecA binding site; other site 349106002501 Preprotein binding site; other site 349106002502 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 349106002503 GSH binding site [chemical binding]; other site 349106002504 catalytic residues [active] 349106002505 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 349106002506 active site residue [active] 349106002507 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 349106002508 RNA binding site [nucleotide binding]; other site 349106002509 GTPase RsgA; Reviewed; Region: PRK00098 349106002510 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 349106002511 GTPase/Zn-binding domain interface [polypeptide binding]; other site 349106002512 GTP/Mg2+ binding site [chemical binding]; other site 349106002513 G4 box; other site 349106002514 G5 box; other site 349106002515 G1 box; other site 349106002516 Switch I region; other site 349106002517 G2 box; other site 349106002518 G3 box; other site 349106002519 Switch II region; other site 349106002520 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 349106002521 catalytic site [active] 349106002522 putative active site [active] 349106002523 putative substrate binding site [chemical binding]; other site 349106002524 dimer interface [polypeptide binding]; other site 349106002525 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 349106002526 putative active site [active] 349106002527 putative metal binding site [ion binding]; other site 349106002528 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 349106002529 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 349106002530 substrate binding site [chemical binding]; other site 349106002531 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 349106002532 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106002533 active site 349106002534 HIGH motif; other site 349106002535 nucleotide binding site [chemical binding]; other site 349106002536 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 349106002537 KMSKS motif; other site 349106002538 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 349106002539 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 349106002540 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 349106002541 non-specific DNA binding site [nucleotide binding]; other site 349106002542 salt bridge; other site 349106002543 sequence-specific DNA binding site [nucleotide binding]; other site 349106002544 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 349106002545 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002546 homodimer interface [polypeptide binding]; other site 349106002547 catalytic residue [active] 349106002548 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 349106002549 SelR domain; Region: SelR; pfam01641 349106002550 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 349106002551 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 349106002552 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 349106002553 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 349106002554 ATP binding site [chemical binding]; other site 349106002555 Mg2+ binding site [ion binding]; other site 349106002556 G-X-G motif; other site 349106002557 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 349106002558 ATP binding site [chemical binding]; other site 349106002559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106002560 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 349106002561 Sm1 motif; other site 349106002562 intra - hexamer interaction site; other site 349106002563 inter - hexamer interaction site [polypeptide binding]; other site 349106002564 nucleotide binding pocket [chemical binding]; other site 349106002565 Sm2 motif; other site 349106002566 KpsF/GutQ family protein; Region: kpsF; TIGR00393 349106002567 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 349106002568 putative active site [active] 349106002569 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 349106002570 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349106002571 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 349106002572 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 349106002573 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 349106002574 OstA-like protein; Region: OstA; cl00844 349106002575 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 349106002576 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 349106002577 Walker A/P-loop; other site 349106002578 ATP binding site [chemical binding]; other site 349106002579 Q-loop/lid; other site 349106002580 ABC transporter signature motif; other site 349106002581 Walker B; other site 349106002582 D-loop; other site 349106002583 H-loop/switch region; other site 349106002584 DNA repair protein RadA; Provisional; Region: PRK11823 349106002585 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106002586 Walker A motif; other site 349106002587 ATP binding site [chemical binding]; other site 349106002588 Walker B motif; other site 349106002589 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 349106002590 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 349106002591 dimer interface [polypeptide binding]; other site 349106002592 substrate binding site [chemical binding]; other site 349106002593 ATP binding site [chemical binding]; other site 349106002594 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 349106002595 thiamine phosphate binding site [chemical binding]; other site 349106002596 active site 349106002597 pyrophosphate binding site [ion binding]; other site 349106002598 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 349106002599 substrate binding site [chemical binding]; other site 349106002600 multimerization interface [polypeptide binding]; other site 349106002601 ATP binding site [chemical binding]; other site 349106002602 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 349106002603 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 349106002604 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 349106002605 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 349106002606 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 349106002607 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106002608 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106002609 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 349106002610 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106002611 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106002612 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 349106002613 IMP binding site; other site 349106002614 dimer interface [polypeptide binding]; other site 349106002615 interdomain contacts; other site 349106002616 partial ornithine binding site; other site 349106002617 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 349106002618 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 349106002619 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 349106002620 catalytic site [active] 349106002621 subunit interface [polypeptide binding]; other site 349106002622 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 349106002623 active site 349106002624 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 349106002625 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 349106002626 trimer interface [polypeptide binding]; other site 349106002627 putative metal binding site [ion binding]; other site 349106002628 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 349106002629 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349106002630 peptide chain release factor 2; Provisional; Region: PRK08787 349106002631 RF-1 domain; Region: RF-1; cl02875 349106002632 RF-1 domain; Region: RF-1; cl02875 349106002633 DoxX; Region: DoxX; cl00976 349106002634 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 349106002635 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 349106002636 motif II; other site 349106002637 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349106002638 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 349106002639 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 349106002640 putative dimer interface [polypeptide binding]; other site 349106002641 active site pocket [active] 349106002642 putative cataytic base [active] 349106002643 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 349106002644 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 349106002645 HPP family; Region: HPP; pfam04982 349106002646 MarC family integral membrane protein; Region: MarC; cl00919 349106002647 imidazolonepropionase; Validated; Region: PRK09356 349106002648 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 349106002649 active site 349106002650 Arginase family; Region: Arginase; cl00306 349106002651 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 349106002652 active sites [active] 349106002653 tetramer interface [polypeptide binding]; other site 349106002654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 349106002655 Nucleoside recognition; Region: Gate; cl00486 349106002656 urocanate hydratase; Provisional; Region: PRK05414 349106002657 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 349106002658 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 349106002659 DNA-binding site [nucleotide binding]; DNA binding site 349106002660 UTRA domain; Region: UTRA; cl01230 349106002661 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 349106002662 putative DNA binding site [nucleotide binding]; other site 349106002663 dimerization interface [polypeptide binding]; other site 349106002664 putative Zn2+ binding site [ion binding]; other site 349106002665 Predicted transporter component [General function prediction only]; Region: COG2391 349106002666 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 349106002667 Predicted transporter component [General function prediction only]; Region: COG2391 349106002668 Sulphur transport; Region: Sulf_transp; cl01018 349106002669 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349106002670 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106002671 Coenzyme A binding pocket [chemical binding]; other site 349106002672 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 349106002673 hypothetical protein; Reviewed; Region: PRK09588 349106002674 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349106002675 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349106002676 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 349106002677 Walker A/P-loop; other site 349106002678 ATP binding site [chemical binding]; other site 349106002679 Q-loop/lid; other site 349106002680 ABC transporter signature motif; other site 349106002681 Walker B; other site 349106002682 D-loop; other site 349106002683 H-loop/switch region; other site 349106002684 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 349106002685 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 349106002686 AMP-binding enzyme; Region: AMP-binding; cl15778 349106002687 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106002688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002689 NAD(P) binding site [chemical binding]; other site 349106002690 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349106002691 active site 349106002692 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 349106002693 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 349106002694 active site 349106002695 DNA binding site [nucleotide binding] 349106002696 Int/Topo IB signature motif; other site 349106002697 catalytic residues [active] 349106002698 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 349106002699 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 349106002700 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 349106002701 putative active site [active] 349106002702 catalytic site [active] 349106002703 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 349106002704 putative active site [active] 349106002705 catalytic site [active] 349106002706 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 349106002707 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 349106002708 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 349106002709 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 349106002710 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 349106002711 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 349106002712 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349106002713 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 349106002714 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 349106002715 dimer interface [polypeptide binding]; other site 349106002716 conserved gate region; other site 349106002717 putative PBP binding loops; other site 349106002718 ABC-ATPase subunit interface; other site 349106002719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349106002720 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 349106002721 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 349106002722 Walker A/P-loop; other site 349106002723 ATP binding site [chemical binding]; other site 349106002724 Q-loop/lid; other site 349106002725 ABC transporter signature motif; other site 349106002726 Walker B; other site 349106002727 D-loop; other site 349106002728 H-loop/switch region; other site 349106002729 TOBE domain; Region: TOBE_2; cl01440 349106002730 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; cl16911 349106002731 DNA gyrase subunit A; Validated; Region: PRK05560 349106002732 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 in DNA...; Region: TOP4c; cd00187 349106002733 CAP-like domain; other site 349106002734 active site 349106002735 primary dimer interface [polypeptide binding]; other site 349106002736 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002737 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002738 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002739 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002740 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002741 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106002742 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 349106002743 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106002744 putative C-terminal domain interface [polypeptide binding]; other site 349106002745 putative GSH binding site (G-site) [chemical binding]; other site 349106002746 putative dimer interface [polypeptide binding]; other site 349106002747 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 349106002748 putative N-terminal domain interface [polypeptide binding]; other site 349106002749 putative dimer interface [polypeptide binding]; other site 349106002750 putative substrate binding pocket (H-site) [chemical binding]; other site 349106002751 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 349106002752 Clp amino terminal domain; Region: Clp_N; pfam02861 349106002753 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 349106002754 Walker A motif; other site 349106002755 ATP binding site [chemical binding]; other site 349106002756 Walker B motif; other site 349106002757 arginine finger; other site 349106002758 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 349106002759 Walker A motif; other site 349106002760 ATP binding site [chemical binding]; other site 349106002761 Walker B motif; other site 349106002762 arginine finger; other site 349106002763 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349106002764 BCCT family transporter; Region: BCCT; cl00569 349106002765 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 349106002766 S-adenosylmethionine synthetase; Validated; Region: PRK05250 349106002767 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 349106002768 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 349106002769 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 349106002770 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 349106002771 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 349106002772 minor groove reading motif; other site 349106002773 helix-hairpin-helix signature motif; other site 349106002774 substrate binding pocket [chemical binding]; other site 349106002775 active site 349106002776 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 349106002777 electron transport complex protein RnfB; Provisional; Region: PRK05113 349106002778 Putative Fe-S cluster; Region: FeS; pfam04060 349106002779 4Fe-4S binding domain; Region: Fer4; cl02805 349106002780 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 349106002781 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 349106002782 Protein export membrane protein; Region: SecD_SecF; cl14618 349106002783 Protein export membrane protein; Region: SecD_SecF; cl14618 349106002784 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 349106002785 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 349106002786 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 349106002787 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 349106002788 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349106002789 substrate binding pocket [chemical binding]; other site 349106002790 chain length determination region; other site 349106002791 substrate-Mg2+ binding site; other site 349106002792 catalytic residues [active] 349106002793 aspartate-rich region 1; other site 349106002794 active site lid residues [active] 349106002795 aspartate-rich region 2; other site 349106002796 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 349106002797 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 349106002798 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 349106002799 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106002800 Helix-turn-helix domains; Region: HTH; cl00088 349106002801 EamA-like transporter family; Region: EamA; cl01037 349106002802 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 349106002803 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 349106002804 FeS/SAM binding site; other site 349106002805 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 349106002806 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 349106002807 active site 349106002808 substrate binding site [chemical binding]; other site 349106002809 trimer interface [polypeptide binding]; other site 349106002810 CoA binding site [chemical binding]; other site 349106002811 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; cl12031 349106002812 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 349106002813 lipoyl synthase; Provisional; Region: PRK05481 349106002814 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 349106002815 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 349106002816 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 349106002817 substrate binding site [chemical binding]; other site 349106002818 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 349106002819 substrate binding site [chemical binding]; other site 349106002820 ligand binding site [chemical binding]; other site 349106002821 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 349106002822 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 349106002823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106002824 homodimer interface [polypeptide binding]; other site 349106002825 catalytic residue [active] 349106002826 enoyl-CoA hydratase; Provisional; Region: PRK06688 349106002827 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 349106002828 substrate binding site [chemical binding]; other site 349106002829 oxyanion hole (OAH) forming residues; other site 349106002830 trimer interface [polypeptide binding]; other site 349106002831 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; cl15762 349106002832 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 349106002833 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 349106002834 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106002835 catalytic residue [active] 349106002836 replicative DNA helicase; Region: DnaB; TIGR00665 349106002837 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 349106002838 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 349106002839 Walker A motif; other site 349106002840 ATP binding site [chemical binding]; other site 349106002841 Walker B motif; other site 349106002842 DNA binding loops [nucleotide binding] 349106002843 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 349106002844 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; cl16911 349106002845 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 349106002846 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 349106002847 active site 349106002848 metal binding site [ion binding]; metal-binding site 349106002849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002850 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 349106002851 NAD(P) binding site [chemical binding]; other site 349106002852 active site 349106002853 Site-specific recombinase; Region: SpecificRecomb; cl15411 349106002854 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106002855 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106002856 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106002857 active site 349106002858 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106002859 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106002860 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106002861 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106002862 active site 349106002863 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106002864 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 349106002865 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 349106002866 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 349106002867 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 349106002868 FAD binding site [chemical binding]; other site 349106002869 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 349106002870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002871 oligomerization interface [polypeptide binding]; other site 349106002872 active site 349106002873 NAD+ binding site [chemical binding]; other site 349106002874 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 349106002875 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 349106002876 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106002877 ligand binding site [chemical binding]; other site 349106002878 aminopeptidase N; Provisional; Region: pepN; PRK14015 349106002879 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349106002880 Zn binding site [ion binding]; other site 349106002881 NeuB family; Region: NeuB; cl00496 349106002882 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 349106002883 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 349106002884 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 349106002885 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 349106002886 RNA/DNA hybrid binding site [nucleotide binding]; other site 349106002887 active site 349106002888 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 349106002889 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 349106002890 diiron binding motif [ion binding]; other site 349106002891 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 349106002892 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349106002893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349106002894 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349106002895 HemK family putative methylases; Region: hemK_fam; TIGR00536 349106002896 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 349106002897 S-adenosylmethionine binding site [chemical binding]; other site 349106002898 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 349106002899 Tetramer interface [polypeptide binding]; other site 349106002900 active site 349106002901 FMN-binding site [chemical binding]; other site 349106002902 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 349106002903 putative FMN binding site [chemical binding]; other site 349106002904 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 349106002905 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106002906 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 349106002907 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 349106002908 catalytic core [active] 349106002909 Predicted membrane protein [Function unknown]; Region: COG3671 349106002910 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 349106002911 quinone interaction residues [chemical binding]; other site 349106002912 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 349106002913 active site 349106002914 catalytic residues [active] 349106002915 FMN binding site [chemical binding]; other site 349106002916 substrate binding site [chemical binding]; other site 349106002917 Colicin V production protein; Region: Colicin_V; cl00567 349106002918 amidophosphoribosyltransferase; Provisional; Region: PRK09246 349106002919 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 349106002920 active site 349106002921 tetramer interface [polypeptide binding]; other site 349106002922 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106002923 active site 349106002924 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 349106002925 homotrimer interaction site [polypeptide binding]; other site 349106002926 putative active site [active] 349106002927 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 349106002928 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 349106002929 transmembrane helices; other site 349106002930 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 349106002931 MatE; Region: MatE; cl10513 349106002932 MatE; Region: MatE; cl10513 349106002933 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 349106002934 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 349106002935 Protein export membrane protein; Region: SecD_SecF; cl14618 349106002936 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 349106002937 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 349106002938 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 349106002939 Protein export membrane protein; Region: SecD_SecF; cl14618 349106002940 Preprotein translocase subunit; Region: YajC; cl00806 349106002941 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 349106002942 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 contains two...; Region: OMP_decarboxylase_like; cd04725 349106002943 active site 349106002944 dimer interface [polypeptide binding]; other site 349106002945 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 349106002946 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 349106002947 active site 349106002948 metal binding site [ion binding]; metal-binding site 349106002949 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 349106002950 catalytic core [active] 349106002951 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 349106002952 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 349106002953 RDD family; Region: RDD; cl00746 349106002954 phosphoenolpyruvate synthase; Validated; Region: PRK06464 349106002955 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 349106002956 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 349106002957 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349106002958 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 349106002959 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 349106002960 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106002961 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106002962 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 349106002963 HIT family signature motif; other site 349106002964 catalytic residue [active] 349106002965 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 349106002966 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 349106002967 FMN binding site [chemical binding]; other site 349106002968 active site 349106002969 catalytic residues [active] 349106002970 substrate binding site [chemical binding]; other site 349106002971 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 349106002972 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349106002973 Walker A/P-loop; other site 349106002974 ATP binding site [chemical binding]; other site 349106002975 Q-loop/lid; other site 349106002976 ABC transporter signature motif; other site 349106002977 Walker B; other site 349106002978 D-loop; other site 349106002979 H-loop/switch region; other site 349106002980 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349106002981 Walker A/P-loop; other site 349106002982 ATP binding site [chemical binding]; other site 349106002983 Q-loop/lid; other site 349106002984 ABC transporter signature motif; other site 349106002985 Walker B; other site 349106002986 D-loop; other site 349106002987 H-loop/switch region; other site 349106002988 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106002989 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 349106002990 GTP cyclohydrolase I; Provisional; Region: PLN03044 349106002991 homodecamer interface [polypeptide binding]; other site 349106002992 active site 349106002993 putative catalytic site residues [active] 349106002994 zinc binding site [ion binding]; other site 349106002995 GTP-CH-I/GFRP interaction surface; other site 349106002996 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 349106002997 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 349106002998 NAD binding site [chemical binding]; other site 349106002999 homotetramer interface [polypeptide binding]; other site 349106003000 homodimer interface [polypeptide binding]; other site 349106003001 substrate binding site [chemical binding]; other site 349106003002 active site 349106003003 Uncharacterized conserved protein [Function unknown]; Region: COG2850 349106003004 adenylosuccinate lyase; Provisional; Region: PRK09285 349106003005 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 349106003006 tetramer interface [polypeptide binding]; other site 349106003007 active site 349106003008 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 349106003009 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 349106003010 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 349106003011 homotrimer interaction site [polypeptide binding]; other site 349106003012 zinc binding site [ion binding]; other site 349106003013 CDP-binding sites; other site 349106003014 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 349106003015 putative GSH binding site [chemical binding]; other site 349106003016 catalytic residues [active] 349106003017 sensory histidine kinase CreC; Provisional; Region: PRK11100 349106003018 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 349106003019 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349106003020 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; cl00075 349106003021 DNA-binding response regulator CreB; Provisional; Region: PRK11083 349106003022 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 349106003023 active site 349106003024 phosphorylation site [posttranslational modification] 349106003025 intermolecular recognition site; other site 349106003026 dimerization interface [polypeptide binding]; other site 349106003027 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 349106003028 DNA binding site [nucleotide binding] 349106003029 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 349106003030 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 349106003031 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; cl12031 349106003032 lipase chaperone; Provisional; Region: PRK01294 349106003033 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 349106003034 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 349106003035 dimer interface [polypeptide binding]; other site 349106003036 substrate binding site [chemical binding]; other site 349106003037 metal binding sites [ion binding]; metal-binding site 349106003038 Entericidin EcnA/B family; Region: Entericidin; cl02322 349106003039 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 349106003040 DsrC like protein; Region: DsrC; cl01101 349106003041 DsrE/DsrF-like family; Region: DrsE; cl00672 349106003042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 349106003043 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 349106003044 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 349106003045 active site 349106003046 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 349106003047 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106003048 metal binding triad; other site 349106003049 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349106003050 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 349106003051 metal binding triad; other site 349106003052 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 349106003053 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 349106003054 homodimer interface [polypeptide binding]; other site 349106003055 substrate-cofactor binding pocket; other site 349106003056 catalytic residue [active] 349106003057 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 349106003058 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 349106003059 putative NAD(P) binding site [chemical binding]; other site 349106003060 active site 349106003061 putative substrate binding site [chemical binding]; other site 349106003062 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106003063 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 349106003064 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 349106003065 active site 349106003066 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 349106003067 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 349106003068 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 349106003069 putative acyl-acceptor binding pocket; other site 349106003070 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 349106003071 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 349106003072 dimer interface [polypeptide binding]; other site 349106003073 anticodon binding site; other site 349106003074 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 the...; Region: AspRS_core; cd00777 349106003075 homodimer interface [polypeptide binding]; other site 349106003076 motif 1; other site 349106003077 active site 349106003078 motif 2; other site 349106003079 GAD domain; Region: GAD; pfam02938 349106003080 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 attaches...; Region: class_II_aaRS-like_core; cl00268 349106003081 active site 349106003082 motif 3; other site 349106003083 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 349106003084 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349106003085 tandem repeat interface [polypeptide binding]; other site 349106003086 oligomer interface [polypeptide binding]; other site 349106003087 active site residues [active] 349106003088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106003089 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; cl12031 349106003090 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 349106003091 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 349106003092 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 349106003093 ATP binding site [chemical binding]; other site 349106003094 putative Mg++ binding site [ion binding]; other site 349106003095 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 349106003096 nucleotide binding region [chemical binding]; other site 349106003097 ATP-binding site [chemical binding]; other site 349106003098 Helicase associated domain (HA2); Region: HA2; cl04503 349106003099 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 349106003100 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 349106003101 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 349106003102 FAD binding pocket [chemical binding]; other site 349106003103 FAD binding motif [chemical binding]; other site 349106003104 phosphate binding motif [ion binding]; other site 349106003105 NAD binding pocket [chemical binding]; other site 349106003106 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106003107 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 349106003108 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 349106003109 putative NAD(P) binding site [chemical binding]; other site 349106003110 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106003111 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; cl12031 349106003112 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; cl12031 349106003113 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 349106003114 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 349106003115 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 349106003116 P loop; other site 349106003117 GTP binding site [chemical binding]; other site 349106003118 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 349106003119 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 349106003120 DNA binding site [nucleotide binding] 349106003121 active site 349106003122 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 349106003123 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 349106003124 conserved cys residue [active] 349106003125 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349106003126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 349106003127 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 349106003128 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 349106003129 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106003130 active site 349106003131 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 349106003132 classical (c) SDRs; Region: SDR_c; cd05233 349106003133 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 349106003134 NAD(P) binding site [chemical binding]; other site 349106003135 active site 349106003136 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 349106003137 classical (c) SDRs; Region: SDR_c; cd05233 349106003138 NAD(P) binding site [chemical binding]; other site 349106003139 active site 349106003140 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 349106003141 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; cl00159 349106003142 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 349106003143 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 349106003144 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 349106003145 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 349106003146 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 349106003147 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 349106003148 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 349106003149 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 349106003150 XdhC Rossmann domain; Region: XdhC_C; pfam13478 349106003151 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 349106003152 Ligand binding site; other site 349106003153 metal-binding site 349106003154 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 349106003155 Transcriptional regulator; Region: Transcrip_reg; cl00361 349106003156 Ion transport protein; Region: Ion_trans; pfam00520 349106003157 Ion channel; Region: Ion_trans_2; cl11596 349106003158 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 349106003159 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106003160 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 349106003161 LysE type translocator; Region: LysE; cl00565 349106003162 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 349106003163 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 349106003164 putative DNA binding site [nucleotide binding]; other site 349106003165 putative Zn2+ binding site [ion binding]; other site 349106003166 Helix-turn-helix domains; Region: HTH; cl00088 349106003167 2-isopropylmalate synthase; Validated; Region: PRK03739 349106003168 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 349106003169 active site 349106003170 catalytic residues [active] 349106003171 metal binding site [ion binding]; metal-binding site 349106003172 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 349106003173 hypothetical protein; Provisional; Region: PRK13795 349106003174 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 349106003175 putative active site [active] 349106003176 putative protease; Provisional; Region: PRK15452 349106003177 Peptidase family U32; Region: Peptidase_U32; cl03113 349106003178 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106003179 ligand binding site [chemical binding]; other site 349106003180 putative transposase OrfB; Reviewed; Region: PHA02517 349106003181 HTH-like domain; Region: HTH_21; pfam13276 349106003182 Integrase core domain; Region: rve; cl01316 349106003183 Integrase core domain; Region: rve_3; cl15866 349106003184 Helix-turn-helix domains; Region: HTH; cl00088 349106003185 Helix-turn-helix domains; Region: HTH; cl00088 349106003186 putative transposase OrfB; Reviewed; Region: PHA02517 349106003187 HTH-like domain; Region: HTH_21; pfam13276 349106003188 Integrase core domain; Region: rve; cl01316 349106003189 Integrase core domain; Region: rve_3; cl15866 349106003190 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003191 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 349106003192 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003193 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003194 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 349106003195 Ca2+ binding site [ion binding]; other site 349106003196 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349106003197 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 349106003198 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 349106003199 Helix-turn-helix domains; Region: HTH; cl00088 349106003200 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 349106003201 putative dimerization interface [polypeptide binding]; other site 349106003202 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 349106003203 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 349106003204 substrate binding site [chemical binding]; other site 349106003205 catalytic Zn binding site [ion binding]; other site 349106003206 NAD binding site [chemical binding]; other site 349106003207 structural Zn binding site [ion binding]; other site 349106003208 dimer interface [polypeptide binding]; other site 349106003209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003210 Helix-turn-helix domains; Region: HTH; cl00088 349106003211 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 349106003212 dimerization interface [polypeptide binding]; other site 349106003213 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106003214 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 349106003215 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 349106003216 metal binding site [ion binding]; metal-binding site 349106003217 dimer interface [polypeptide binding]; other site 349106003218 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 349106003219 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 349106003220 Zn binding site [ion binding]; other site 349106003221 fumarylacetoacetase; Region: PLN02856 349106003222 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 349106003223 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 349106003224 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003225 Helix-turn-helix domains; Region: HTH; cl00088 349106003226 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 349106003227 putative dimerization interface [polypeptide binding]; other site 349106003228 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 349106003229 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 349106003230 dimer interface [polypeptide binding]; other site 349106003231 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 349106003232 active site 349106003233 Fe binding site [ion binding]; other site 349106003234 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 349106003235 cofactor binding site; other site 349106003236 metal binding site [ion binding]; metal-binding site 349106003237 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 349106003238 aromatic arch; other site 349106003239 DCoH dimer interaction site [polypeptide binding]; other site 349106003240 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 349106003241 DCoH tetramer interaction site [polypeptide binding]; other site 349106003242 substrate binding site [chemical binding]; other site 349106003243 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 349106003244 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 349106003245 active site 349106003246 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 349106003247 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 349106003248 dimer interface [polypeptide binding]; other site 349106003249 phosphorylation site [posttranslational modification] 349106003250 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 349106003251 ATP binding site [chemical binding]; other site 349106003252 Mg2+ binding site [ion binding]; other site 349106003253 G-X-G motif; other site 349106003254 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349106003255 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 349106003256 active site 349106003257 phosphorylation site [posttranslational modification] 349106003258 intermolecular recognition site; other site 349106003259 dimerization interface [polypeptide binding]; other site 349106003260 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 349106003261 DNA binding site [nucleotide binding] 349106003262 putative metal dependent hydrolase; Provisional; Region: PRK11598 349106003263 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 349106003264 Sulfatase; Region: Sulfatase; cl10460 349106003265 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106003266 ligand binding site [chemical binding]; other site 349106003267 Helix-turn-helix domains; Region: HTH; cl00088 349106003268 putative transposase OrfB; Reviewed; Region: PHA02517 349106003269 HTH-like domain; Region: HTH_21; pfam13276 349106003270 Integrase core domain; Region: rve; cl01316 349106003271 Integrase core domain; Region: rve_3; cl15866 349106003272 HTH-like domain; Region: HTH_21; pfam13276 349106003273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106003274 Integrase core domain; Region: rve; cl01316 349106003275 Integrase core domain; Region: rve_3; cl15866 349106003276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003277 Helix-turn-helix domains; Region: HTH; cl00088 349106003278 Helix-turn-helix domains; Region: HTH; cl00088 349106003279 Helix-turn-helix domains; Region: HTH; cl00088 349106003280 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106003281 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 349106003282 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106003283 Integrase core domain; Region: rve; cl01316 349106003284 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106003285 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 349106003286 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106003287 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 349106003288 putative dimer interface [polypeptide binding]; other site 349106003289 N-terminal domain interface [polypeptide binding]; other site 349106003290 putative substrate binding pocket (H-site) [chemical binding]; other site 349106003291 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 349106003292 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 349106003293 Walker A/P-loop; other site 349106003294 ATP binding site [chemical binding]; other site 349106003295 Q-loop/lid; other site 349106003296 ABC transporter signature motif; other site 349106003297 Walker B; other site 349106003298 D-loop; other site 349106003299 H-loop/switch region; other site 349106003300 TOBE domain; Region: TOBE_2; cl01440 349106003301 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 349106003302 dimer interface [polypeptide binding]; other site 349106003303 conserved gate region; other site 349106003304 putative PBP binding loops; other site 349106003305 ABC-ATPase subunit interface; other site 349106003306 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 349106003307 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 349106003308 dimer interface [polypeptide binding]; other site 349106003309 ABC-ATPase subunit interface; other site 349106003310 putative PBP binding loops; other site 349106003311 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 349106003312 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 349106003313 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 349106003314 exodeoxyribonuclease X; Provisional; Region: PRK07983 349106003315 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 349106003316 active site 349106003317 catalytic site [active] 349106003318 substrate binding site [chemical binding]; other site 349106003319 EamA-like transporter family; Region: EamA; cl01037 349106003320 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 349106003321 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 349106003322 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106003323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106003324 Probable transposase; Region: OrfB_IS605; pfam01385 349106003325 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106003326 putative alcohol dehydrogenase; Provisional; Region: PRK09860 349106003327 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 349106003328 active site 349106003329 metal binding site [ion binding]; metal-binding site 349106003330 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 349106003331 active site 349106003332 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106003333 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 349106003334 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106003335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106003336 Probable transposase; Region: OrfB_IS605; pfam01385 349106003337 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106003338 Helix-turn-helix domains; Region: HTH; cl00088 349106003339 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 349106003340 putative effector binding pocket; other site 349106003341 dimerization interface [polypeptide binding]; other site 349106003342 D-lactate dehydrogenase; Provisional; Region: PRK11183 349106003343 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 349106003344 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 349106003345 AMP-binding enzyme; Region: AMP-binding; cl15778 349106003346 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106003347 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 349106003348 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 349106003349 substrate binding site [chemical binding]; other site 349106003350 oxyanion hole (OAH) forming residues; other site 349106003351 trimer interface [polypeptide binding]; other site 349106003352 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; cl15762 349106003353 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 349106003354 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106003355 catalytic residue [active] 349106003356 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 349106003357 FAD binding domain; Region: FAD_binding_4; pfam01565 349106003358 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 349106003359 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106003360 ligand binding site [chemical binding]; other site 349106003361 Calx-beta domain; Region: Calx-beta; cl02522 349106003362 Calx-beta domain; Region: Calx-beta; cl02522 349106003363 Calx-beta domain; Region: Calx-beta; cl02522 349106003364 Calx-beta domain; Region: Calx-beta; cl02522 349106003365 Calx-beta domain; Region: Calx-beta; cl02522 349106003366 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003367 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349106003368 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 349106003369 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106003370 Integrase core domain; Region: rve; cl01316 349106003371 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106003372 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106003373 Helix-turn-helix domains; Region: HTH; cl00088 349106003374 HTH-like domain; Region: HTH_21; pfam13276 349106003375 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106003376 Integrase core domain; Region: rve; cl01316 349106003377 Integrase core domain; Region: rve_3; cl15866 349106003378 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003379 Helix-turn-helix domains; Region: HTH; cl00088 349106003380 Helix-turn-helix domains; Region: HTH; cl00088 349106003381 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106003382 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 349106003383 putative C-terminal domain interface [polypeptide binding]; other site 349106003384 putative GSH binding site (G-site) [chemical binding]; other site 349106003385 putative dimer interface [polypeptide binding]; other site 349106003386 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106003387 N-terminal domain interface [polypeptide binding]; other site 349106003388 dimer interface [polypeptide binding]; other site 349106003389 substrate binding pocket (H-site) [chemical binding]; other site 349106003390 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 349106003391 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 349106003392 potential catalytic triad [active] 349106003393 conserved cys residue [active] 349106003394 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 349106003395 Prostaglandin dehydrogenases; Region: PGDH; cd05288 349106003396 NAD(P) binding site [chemical binding]; other site 349106003397 substrate binding site [chemical binding]; other site 349106003398 dimer interface [polypeptide binding]; other site 349106003399 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 349106003400 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 349106003401 dimer interface [polypeptide binding]; other site 349106003402 active site 349106003403 metal binding site [ion binding]; metal-binding site 349106003404 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106003405 Helix-turn-helix domains; Region: HTH; cl00088 349106003406 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 349106003407 exonuclease subunit SbcC; Provisional; Region: PRK10246 349106003408 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003409 Walker A/P-loop; other site 349106003410 ATP binding site [chemical binding]; other site 349106003411 Q-loop/lid; other site 349106003412 exonuclease subunit SbcC; Provisional; Region: PRK10246 349106003413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003414 ABC transporter signature motif; other site 349106003415 Walker B; other site 349106003416 D-loop; other site 349106003417 H-loop/switch region; other site 349106003418 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 349106003419 active site 349106003420 metal binding site [ion binding]; metal-binding site 349106003421 DNA binding site [nucleotide binding] 349106003422 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 349106003423 putative methyltransferase; Provisional; Region: PRK14968 349106003424 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 349106003425 S-adenosylmethionine binding site [chemical binding]; other site 349106003426 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349106003427 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106003428 Walker A/P-loop; other site 349106003429 ATP binding site [chemical binding]; other site 349106003430 Q-loop/lid; other site 349106003431 ABC transporter signature motif; other site 349106003432 Walker B; other site 349106003433 D-loop; other site 349106003434 H-loop/switch region; other site 349106003435 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 349106003436 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 349106003437 intersubunit interface [polypeptide binding]; other site 349106003438 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 349106003439 dimer interface [polypeptide binding]; other site 349106003440 ABC-ATPase subunit interface; other site 349106003441 putative PBP binding regions; other site 349106003442 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 349106003443 ABC-ATPase subunit interface; other site 349106003444 dimer interface [polypeptide binding]; other site 349106003445 putative PBP binding regions; other site 349106003446 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 349106003447 putative substrate translocation pore; other site 349106003448 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 349106003449 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 349106003450 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 349106003451 N-terminal plug; other site 349106003452 ligand-binding site [chemical binding]; other site 349106003453 siroheme synthase; Provisional; Region: cysG; PRK10637 349106003454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106003455 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 349106003456 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349106003457 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 349106003458 Active Sites [active] 349106003459 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 349106003460 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 349106003461 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349106003462 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349106003463 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 349106003464 ATP-sulfurylase; Region: ATPS; cd00517 349106003465 active site 349106003466 HXXH motif; other site 349106003467 flexible loop; other site 349106003468 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 349106003469 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 349106003470 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 349106003471 putative active site [active] 349106003472 catalytic site [active] 349106003473 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 349106003474 putative active site [active] 349106003475 catalytic site [active] 349106003476 Protein of unknown function DUF45; Region: DUF45; cl00636 349106003477 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 349106003478 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 349106003479 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 349106003480 ATP binding site [chemical binding]; other site 349106003481 putative Mg++ binding site [ion binding]; other site 349106003482 Helix-turn-helix domains; Region: HTH; cl00088 349106003483 Helix-turn-helix domains; Region: HTH; cl00088 349106003484 putative transposase OrfB; Reviewed; Region: PHA02517 349106003485 HTH-like domain; Region: HTH_21; pfam13276 349106003486 Integrase core domain; Region: rve; cl01316 349106003487 Integrase core domain; Region: rve_3; cl15866 349106003488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 349106003489 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 349106003490 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 349106003491 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 349106003492 active site 349106003493 Int/Topo IB signature motif; other site 349106003494 DNA binding site [nucleotide binding] 349106003495 HsdM N-terminal domain; Region: HsdM_N; pfam12161 349106003496 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; cl16911 349106003497 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 349106003498 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 349106003499 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 349106003500 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 349106003501 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 349106003502 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 349106003503 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 349106003504 dimer interface [polypeptide binding]; other site 349106003505 conserved gate region; other site 349106003506 putative PBP binding loops; other site 349106003507 ABC-ATPase subunit interface; other site 349106003508 sulfate transport protein; Provisional; Region: cysT; CHL00187 349106003509 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 349106003510 dimer interface [polypeptide binding]; other site 349106003511 conserved gate region; other site 349106003512 putative PBP binding loops; other site 349106003513 ABC-ATPase subunit interface; other site 349106003514 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 349106003515 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 349106003516 Walker A/P-loop; other site 349106003517 ATP binding site [chemical binding]; other site 349106003518 Q-loop/lid; other site 349106003519 ABC transporter signature motif; other site 349106003520 Walker B; other site 349106003521 D-loop; other site 349106003522 H-loop/switch region; other site 349106003523 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 349106003524 Ligand Binding Site [chemical binding]; other site 349106003525 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 349106003526 Ligand Binding Site [chemical binding]; other site 349106003527 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 349106003528 dimerization interface [polypeptide binding]; other site 349106003529 putative DNA binding site [nucleotide binding]; other site 349106003530 putative Zn2+ binding site [ion binding]; other site 349106003531 arsenical pump membrane protein; Provisional; Region: PRK15445 349106003532 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 349106003533 transmembrane helices; other site 349106003534 Low molecular weight phosphatase family; Region: LMWPc; cl00105 349106003535 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 349106003536 active site 349106003537 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349106003538 MgtC family; Region: MgtC; pfam02308 349106003539 glutamate dehydrogenase; Provisional; Region: PRK09414 349106003540 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 349106003541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106003542 NAD(P) binding pocket [chemical binding]; other site 349106003543 putative transporter; Provisional; Region: PRK10504 349106003544 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 349106003545 putative substrate translocation pore; other site 349106003546 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 349106003547 putative S-transferase; Provisional; Region: PRK11752 349106003548 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 349106003549 C-terminal domain interface [polypeptide binding]; other site 349106003550 GSH binding site (G-site) [chemical binding]; other site 349106003551 dimer interface [polypeptide binding]; other site 349106003552 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106003553 N-terminal domain interface [polypeptide binding]; other site 349106003554 dimer interface [polypeptide binding]; other site 349106003555 substrate binding pocket (H-site) [chemical binding]; other site 349106003556 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 349106003557 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 349106003558 ATP binding site [chemical binding]; other site 349106003559 Mg++ binding site [ion binding]; other site 349106003560 motif III; other site 349106003561 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 349106003562 nucleotide binding region [chemical binding]; other site 349106003563 ATP-binding site [chemical binding]; other site 349106003564 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 349106003565 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 349106003566 catalytic residues [active] 349106003567 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 349106003568 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 349106003569 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 349106003570 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106003571 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 349106003572 substrate binding pocket [chemical binding]; other site 349106003573 membrane-bound complex binding site; other site 349106003574 hinge residues; other site 349106003575 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106003576 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 349106003577 dimer interface [polypeptide binding]; other site 349106003578 conserved gate region; other site 349106003579 putative PBP binding loops; other site 349106003580 ABC-ATPase subunit interface; other site 349106003581 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106003582 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 349106003583 Walker A/P-loop; other site 349106003584 ATP binding site [chemical binding]; other site 349106003585 Q-loop/lid; other site 349106003586 ABC transporter signature motif; other site 349106003587 Walker B; other site 349106003588 D-loop; other site 349106003589 H-loop/switch region; other site 349106003590 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 349106003591 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 349106003592 glutamine binding [chemical binding]; other site 349106003593 catalytic triad [active] 349106003594 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 349106003595 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 349106003596 chorismate binding enzyme; Region: Chorismate_bind; cl10555 349106003597 Helix-turn-helix domains; Region: HTH; cl00088 349106003598 ornithine decarboxylase; Provisional; Region: PRK13578 349106003599 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; cl09944 349106003600 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 349106003601 homodimer interface [polypeptide binding]; other site 349106003602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106003603 catalytic residue [active] 349106003604 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 349106003605 Protein of unknown function (DUF819); Region: DUF819; cl02317 349106003606 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 349106003607 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003608 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003609 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 349106003610 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003612 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 349106003613 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 349106003614 inhibitor-cofactor binding pocket; inhibition site 349106003615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106003616 catalytic residue [active] 349106003617 putative transposase OrfB; Reviewed; Region: PHA02517 349106003618 HTH-like domain; Region: HTH_21; pfam13276 349106003619 Integrase core domain; Region: rve; cl01316 349106003620 Integrase core domain; Region: rve_3; cl15866 349106003621 Helix-turn-helix domains; Region: HTH; cl00088 349106003622 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003623 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003624 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003625 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003626 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106003627 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 349106003628 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349106003629 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 349106003630 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349106003631 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; cl12031 349106003632 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106003633 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 349106003634 putative active site [active] 349106003635 putative FMN binding site [chemical binding]; other site 349106003636 putative substrate binding site [chemical binding]; other site 349106003637 putative catalytic residue [active] 349106003638 Helix-turn-helix domains; Region: HTH; cl00088 349106003639 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 349106003640 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106003641 Helix-turn-helix domains; Region: HTH; cl00088 349106003642 Fasciclin domain; Region: Fasciclin; cl02663 349106003643 short chain dehydrogenase; Provisional; Region: PRK06101 349106003644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106003645 NAD(P) binding site [chemical binding]; other site 349106003646 active site 349106003647 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 349106003648 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106003649 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 349106003650 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 349106003651 S-adenosylmethionine binding site [chemical binding]; other site 349106003652 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 349106003653 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349106003654 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 349106003655 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 349106003656 active site 349106003657 catalytic tetrad [active] 349106003658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003659 Helix-turn-helix domains; Region: HTH; cl00088 349106003660 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 349106003661 putative effector binding pocket; other site 349106003662 dimerization interface [polypeptide binding]; other site 349106003663 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 349106003664 AMP-binding enzyme; Region: AMP-binding; cl15778 349106003665 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106003666 formyl-coenzyme A transferase; Provisional; Region: PRK05398 349106003667 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349106003668 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 349106003669 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 349106003670 substrate binding site [chemical binding]; other site 349106003671 oxyanion hole (OAH) forming residues; other site 349106003672 trimer interface [polypeptide binding]; other site 349106003673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106003674 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349106003675 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 349106003676 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 349106003677 dimer interface [polypeptide binding]; other site 349106003678 active site 349106003679 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 349106003680 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 349106003681 active site 349106003682 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106003683 Helix-turn-helix domains; Region: HTH; cl00088 349106003684 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 349106003685 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 349106003686 active site 349106003687 Int/Topo IB signature motif; other site 349106003688 Protein of unknown function (DUF779); Region: DUF779; cl01432 349106003689 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 349106003690 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106003691 NAD(P) binding site [chemical binding]; other site 349106003692 catalytic residues [active] 349106003693 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 349106003694 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 349106003695 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 349106003696 Helix-turn-helix domains; Region: HTH; cl00088 349106003697 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 349106003698 dimerization interface [polypeptide binding]; other site 349106003699 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 349106003700 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 349106003701 tetramer interface [polypeptide binding]; other site 349106003702 active site 349106003703 Mg2+/Mn2+ binding site [ion binding]; other site 349106003704 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 349106003705 dimer interface [polypeptide binding]; other site 349106003706 Citrate synthase; Region: Citrate_synt; pfam00285 349106003707 active site 349106003708 citrylCoA binding site [chemical binding]; other site 349106003709 oxalacetate/citrate binding site [chemical binding]; other site 349106003710 coenzyme A binding site [chemical binding]; other site 349106003711 catalytic triad [active] 349106003712 aconitate hydratase; Validated; Region: PRK09277 349106003713 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 349106003714 substrate binding site [chemical binding]; other site 349106003715 ligand binding site [chemical binding]; other site 349106003716 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 349106003717 substrate binding site [chemical binding]; other site 349106003718 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 349106003719 PrpF protein; Region: PrpF; pfam04303 349106003720 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 349106003721 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349106003722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003723 Walker A/P-loop; other site 349106003724 ATP binding site [chemical binding]; other site 349106003725 Q-loop/lid; other site 349106003726 ABC transporter signature motif; other site 349106003727 Walker B; other site 349106003728 D-loop; other site 349106003729 H-loop/switch region; other site 349106003730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106003731 Coenzyme A binding pocket [chemical binding]; other site 349106003732 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 349106003733 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 349106003734 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 349106003735 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 349106003736 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 349106003737 G1 box; other site 349106003738 GTP/Mg2+ binding site [chemical binding]; other site 349106003739 G2 box; other site 349106003740 Switch I region; other site 349106003741 G3 box; other site 349106003742 Switch II region; other site 349106003743 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 349106003744 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 349106003745 arsenite-activated ATPase ArsA; Region: arsA; TIGR00345 349106003746 DTAP/Switch II; other site 349106003747 Switch I; other site 349106003748 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 349106003749 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 349106003750 Carbon starvation protein CstA; Region: CstA; pfam02554 349106003751 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 349106003752 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106003753 active site 349106003754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003755 Family description; Region: UvrD_C_2; cl15862 349106003756 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 349106003757 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 349106003758 Family description; Region: UvrD_C_2; cl15862 349106003759 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 349106003760 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 349106003761 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 349106003762 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 349106003763 probable active site [active] 349106003764 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349106003765 integrase; Provisional; Region: PRK09692 349106003766 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 349106003767 active site 349106003768 Int/Topo IB signature motif; other site 349106003769 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 349106003770 putative heme binding pocket [chemical binding]; other site 349106003771 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 349106003772 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349106003773 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 349106003774 catalytic residue [active] 349106003775 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 349106003776 Helix-turn-helix domains; Region: HTH; cl00088 349106003777 putative transposase OrfB; Reviewed; Region: PHA02517 349106003778 HTH-like domain; Region: HTH_21; pfam13276 349106003779 Integrase core domain; Region: rve; cl01316 349106003780 Integrase core domain; Region: rve_3; cl15866 349106003781 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 349106003782 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 349106003783 putative active site [active] 349106003784 Zn binding site [ion binding]; other site 349106003785 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 349106003786 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 349106003787 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 349106003788 generic binding surface I; other site 349106003789 generic binding surface II; other site 349106003790 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 349106003791 Isochorismatase family; Region: Isochorismatase; pfam00857 349106003792 catalytic triad [active] 349106003793 dimer interface [polypeptide binding]; other site 349106003794 conserved cis-peptide bond; other site 349106003795 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 349106003796 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 349106003797 BCCT family transporter; Region: BCCT; cl00569 349106003798 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 349106003799 active site 349106003800 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 349106003801 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106003802 NAD(P) binding site [chemical binding]; other site 349106003803 catalytic residues [active] 349106003804 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 349106003805 homotrimer interaction site [polypeptide binding]; other site 349106003806 putative active site [active] 349106003807 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003808 Helix-turn-helix domains; Region: HTH; cl00088 349106003809 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 349106003810 putative dimerization interface [polypeptide binding]; other site 349106003811 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 349106003812 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 349106003813 serine O-acetyltransferase; Region: cysE; TIGR01172 349106003814 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 349106003815 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 349106003816 trimer interface [polypeptide binding]; other site 349106003817 active site 349106003818 substrate binding site [chemical binding]; other site 349106003819 CoA binding site [chemical binding]; other site 349106003820 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 349106003821 homooctamer interface [polypeptide binding]; other site 349106003822 active site 349106003823 Predicted permeases [General function prediction only]; Region: RarD; COG2962 349106003824 EamA-like transporter family; Region: EamA; cl01037 349106003825 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 349106003826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106003827 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 349106003828 hinge; other site 349106003829 active site 349106003830 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 349106003831 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 349106003832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106003833 homodimer interface [polypeptide binding]; other site 349106003834 catalytic residue [active] 349106003835 Chorismate mutase type II; Region: CM_2; cl00693 349106003836 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 349106003837 Prephenate dehydratase; Region: PDT; pfam00800 349106003838 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 349106003839 putative L-Phe binding site [chemical binding]; other site 349106003840 transaldolase-like protein; Provisional; Region: PTZ00411 349106003841 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 349106003842 active site 349106003843 dimer interface [polypeptide binding]; other site 349106003844 catalytic residue [active] 349106003845 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106003846 active site 349106003847 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 349106003848 Rubredoxin; Region: Rubredoxin; pfam00301 349106003849 iron binding site [ion binding]; other site 349106003850 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106003851 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; cl12031 349106003852 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106003853 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; cl12031 349106003854 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 349106003855 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 349106003856 heterotetramer interface [polypeptide binding]; other site 349106003857 active site pocket [active] 349106003858 cleavage site 349106003859 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 349106003860 putative catalytic site [active] 349106003861 putative phosphate binding site [ion binding]; other site 349106003862 active site 349106003863 metal binding site A [ion binding]; metal-binding site 349106003864 DNA binding site [nucleotide binding] 349106003865 putative AP binding site [nucleotide binding]; other site 349106003866 putative metal binding site B [ion binding]; other site 349106003867 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 349106003868 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 349106003869 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 349106003870 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 349106003871 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 349106003872 active site 349106003873 substrate binding site [chemical binding]; other site 349106003874 metal binding site [ion binding]; metal-binding site 349106003875 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 349106003876 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; cl09108 349106003877 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 key...; Region: CBS_pair_IMPDH; cd04601 349106003878 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 the guanine...; Region: IMPDH; cd00381 349106003879 active site 349106003880 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349106003881 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106003882 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 349106003883 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349106003884 active site 349106003885 HIGH motif; other site 349106003886 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 349106003887 KMSKS motif; other site 349106003888 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 349106003889 tRNA binding surface [nucleotide binding]; other site 349106003890 anticodon binding site; other site 349106003891 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 349106003892 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 349106003893 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 349106003894 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 349106003895 active site 349106003896 catalytic site [active] 349106003897 metal binding site [ion binding]; metal-binding site 349106003898 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 349106003899 Di-iron ligands [ion binding]; other site 349106003900 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 349106003901 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 349106003902 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 349106003903 Malic enzyme, N-terminal domain; Region: malic; pfam00390 349106003904 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 349106003905 putative NAD(P) binding site [chemical binding]; other site 349106003906 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 349106003907 Sensors of blue-light using FAD; Region: BLUF; cl04855 349106003908 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 349106003909 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 349106003910 active site 349106003911 NTP binding site [chemical binding]; other site 349106003912 metal binding triad [ion binding]; metal-binding site 349106003913 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349106003914 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 349106003915 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 349106003916 active site 349106003917 DNA binding site [nucleotide binding] 349106003918 Int/Topo IB signature motif; other site 349106003919 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349106003920 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 349106003921 Uncharacterized conserved protein [Function unknown]; Region: COG1315 349106003922 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 349106003923 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 349106003924 MAEBL; Provisional; Region: PTZ00121 349106003925 Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]; Region: NtpI; COG1269 349106003926 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 349106003927 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 349106003928 baseplate wedge subunit and tail pin; Provisional; Region: 10; PHA02582 349106003929 Terminase-like family; Region: Terminase_6; pfam03237 349106003930 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349106003931 catalytic residues [active] 349106003932 Helix-turn-helix domains; Region: HTH; cl00088 349106003933 putative transposase OrfB; Reviewed; Region: PHA02517 349106003934 HTH-like domain; Region: HTH_21; pfam13276 349106003935 Integrase core domain; Region: rve; cl01316 349106003936 Integrase core domain; Region: rve_3; cl15866 349106003937 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; cl02380 349106003938 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349106003939 LrgB-like family; Region: LrgB; cl00596 349106003940 LrgA family; Region: LrgA; cl00608 349106003941 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106003942 Helix-turn-helix domains; Region: HTH; cl00088 349106003943 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 349106003944 putative dimerization interface [polypeptide binding]; other site 349106003945 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 349106003946 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 349106003947 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106003948 ATP binding site [chemical binding]; other site 349106003949 putative Mg++ binding site [ion binding]; other site 349106003950 Restriction endonuclease; Region: Mrr_cat; cl00516 349106003951 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349106003952 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 349106003953 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 349106003954 HsdM N-terminal domain; Region: HsdM_N; pfam12161 349106003955 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; cl16911 349106003956 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349106003957 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 349106003958 Helix-turn-helix domains; Region: HTH; cl00088 349106003959 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 349106003960 non-specific DNA binding site [nucleotide binding]; other site 349106003961 salt bridge; other site 349106003962 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 349106003963 sequence-specific DNA binding site [nucleotide binding]; other site 349106003964 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 349106003965 Catalytic site [active] 349106003966 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 349106003967 Predicted permease [General function prediction only]; Region: COG2056 349106003968 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 349106003969 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349106003970 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 349106003971 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 349106003972 Integrase core domain; Region: rve; cl01316 349106003973 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 349106003974 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 349106003975 Helix-turn-helix domains; Region: HTH; cl00088 349106003976 putative transposase OrfB; Reviewed; Region: PHA02517 349106003977 HTH-like domain; Region: HTH_21; pfam13276 349106003978 Integrase core domain; Region: rve; cl01316 349106003979 Integrase core domain; Region: rve_3; cl15866 349106003980 Helix-turn-helix domains; Region: HTH; cl00088 349106003981 Integrase core domain; Region: rve; cl01316 349106003982 Integrase core domain; Region: rve_3; cl15866 349106003983 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 349106003984 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349106003985 Walker A motif; other site 349106003986 ATP binding site [chemical binding]; other site 349106003987 Walker B motif; other site 349106003988 arginine finger; other site 349106003989 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 349106003990 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349106003991 HTH-like domain; Region: HTH_21; pfam13276 349106003992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106003993 Integrase core domain; Region: rve; cl01316 349106003994 Integrase core domain; Region: rve_3; cl15866 349106003995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106003996 Helix-turn-helix domains; Region: HTH; cl00088 349106003997 Helix-turn-helix domains; Region: HTH; cl00088 349106003998 Helix-turn-helix domains; Region: HTH; cl00088 349106003999 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106004000 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 349106004001 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106004002 Integrase core domain; Region: rve; cl01316 349106004003 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106004004 Calx-beta domain; Region: Calx-beta; cl02522 349106004005 Calx-beta domain; Region: Calx-beta; cl02522 349106004006 Calx-beta domain; Region: Calx-beta; cl02522 349106004007 Calx-beta domain; Region: Calx-beta; cl02522 349106004008 Calx-beta domain; Region: Calx-beta; cl02522 349106004009 VCBS repeat; Region: VCBS_repeat; TIGR01965 349106004010 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 349106004011 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 349106004012 catalytic triad [active] 349106004013 dimer interface [polypeptide binding]; other site 349106004014 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 349106004015 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 349106004016 generic binding surface II; other site 349106004017 generic binding surface I; other site 349106004018 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 349106004019 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 349106004020 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 349106004021 Glycerate kinase family; Region: Gly_kinase; cl00841 349106004022 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 349106004023 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 349106004024 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 349106004025 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 349106004026 catalytic residues [active] 349106004027 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 349106004028 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 349106004029 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106004030 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106004031 Walker A/P-loop; other site 349106004032 ATP binding site [chemical binding]; other site 349106004033 Q-loop/lid; other site 349106004034 ABC transporter signature motif; other site 349106004035 Walker B; other site 349106004036 D-loop; other site 349106004037 H-loop/switch region; other site 349106004038 NMT1-like family; Region: NMT1_2; cl15260 349106004039 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 349106004040 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 349106004041 dimer interface [polypeptide binding]; other site 349106004042 conserved gate region; other site 349106004043 ABC-ATPase subunit interface; other site 349106004044 RF-1 domain; Region: RF-1; cl02875 349106004045 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 349106004046 NAD(P) binding site [chemical binding]; other site 349106004047 catalytic residues [active] 349106004048 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349106004049 classical (c) SDRs; Region: SDR_c; cd05233 349106004050 NAD(P) binding site [chemical binding]; other site 349106004051 active site 349106004052 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 349106004053 Dehydratase family; Region: ILVD_EDD; cl00340 349106004054 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 349106004055 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 349106004056 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106004057 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 349106004058 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 349106004059 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 349106004060 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 349106004061 active site 2 [active] 349106004062 active site 1 [active] 349106004063 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 349106004064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106004065 NAD(P) binding site [chemical binding]; other site 349106004066 active site 349106004067 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 349106004068 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 349106004069 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 349106004070 dimer interface [polypeptide binding]; other site 349106004071 active site 349106004072 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 349106004073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106004074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106004075 Probable transposase; Region: OrfB_IS605; pfam01385 349106004076 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106004077 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 349106004078 Ligand binding site; other site 349106004079 oligomer interface; other site 349106004080 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 349106004081 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 349106004082 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 349106004083 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349106004084 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 349106004085 Walker A/P-loop; other site 349106004086 ATP binding site [chemical binding]; other site 349106004087 Q-loop/lid; other site 349106004088 ABC transporter signature motif; other site 349106004089 Walker B; other site 349106004090 D-loop; other site 349106004091 H-loop/switch region; other site 349106004092 ParB-like partition proteins; Region: parB_part; TIGR00180 349106004093 ParB-like nuclease domain; Region: ParBc; cl02129 349106004094 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 349106004095 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 349106004096 P-loop; other site 349106004097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106004098 Magnesium ion binding site [ion binding]; other site 349106004099 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 349106004100 Magnesium ion binding site [ion binding]; other site 349106004101 Methyltransferase domain; Region: Methyltransf_31; pfam13847 349106004102 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 349106004103 S-adenosylmethionine binding site [chemical binding]; other site 349106004104 AAA domain; Region: AAA_32; pfam13654 349106004105 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 349106004106 WYL domain; Region: WYL; cl14852 349106004107 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 349106004108 putative metal binding site [ion binding]; other site 349106004109 Ion transport protein; Region: Ion_trans; pfam00520 349106004110 Ion channel; Region: Ion_trans_2; cl11596 349106004111 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 349106004112 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 349106004113 E3 interaction surface; other site 349106004114 lipoyl attachment site [posttranslational modification]; other site 349106004115 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 349106004116 E3 interaction surface; other site 349106004117 lipoyl attachment site [posttranslational modification]; other site 349106004118 e3 binding domain; Region: E3_binding; pfam02817 349106004119 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 349106004120 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 349106004121 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 349106004122 dimer interface [polypeptide binding]; other site 349106004123 TPP-binding site [chemical binding]; other site 349106004124 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 349106004125 Fibronectin type III-like domain; Region: Fn3-like; cl15273 349106004126 Predicted ATPase [General function prediction only]; Region: COG1485 349106004127 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 349106004128 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 349106004129 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 349106004130 dimer interface [polypeptide binding]; other site 349106004131 conserved gate region; other site 349106004132 putative PBP binding loops; other site 349106004133 ABC-ATPase subunit interface; other site 349106004134 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 349106004135 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 349106004136 dimer interface [polypeptide binding]; other site 349106004137 conserved gate region; other site 349106004138 ABC-ATPase subunit interface; other site 349106004139 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106004140 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 349106004141 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 349106004142 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 349106004143 homodimer interface [polypeptide binding]; other site 349106004144 substrate-cofactor binding pocket; other site 349106004145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004146 catalytic residue [active] 349106004147 NMT1-like family; Region: NMT1_2; cl15260 349106004148 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349106004149 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 349106004150 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 349106004151 Walker A/P-loop; other site 349106004152 ATP binding site [chemical binding]; other site 349106004153 Q-loop/lid; other site 349106004154 ABC transporter signature motif; other site 349106004155 Walker B; other site 349106004156 D-loop; other site 349106004157 H-loop/switch region; other site 349106004158 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 349106004159 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 349106004160 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 349106004161 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106004162 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 349106004163 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106004164 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; cl16911 349106004165 Domain of unknown function (DUF329); Region: DUF329; cl01144 349106004166 acetylornithine aminotransferase; Provisional; Region: PRK02627 349106004167 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 349106004168 inhibitor-cofactor binding pocket; inhibition site 349106004169 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004170 catalytic residue [active] 349106004171 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 349106004172 RuvA N terminal domain; Region: RuvA_N; pfam01330 349106004173 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 349106004174 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 349106004175 Phosphoglycerate kinase; Region: PGK; pfam00162 349106004176 substrate binding site [chemical binding]; other site 349106004177 hinge regions; other site 349106004178 ADP binding site [chemical binding]; other site 349106004179 catalytic site [active] 349106004180 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 349106004181 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 349106004182 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106004183 response regulator; Provisional; Region: PRK09483 349106004184 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 349106004185 active site 349106004186 phosphorylation site [posttranslational modification] 349106004187 intermolecular recognition site; other site 349106004188 dimerization interface [polypeptide binding]; other site 349106004189 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 349106004190 DNA binding residues [nucleotide binding] 349106004191 dimerization interface [polypeptide binding]; other site 349106004192 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 349106004193 C-terminal peptidase (prc); Region: prc; TIGR00225 349106004194 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 349106004195 protein binding site [polypeptide binding]; other site 349106004196 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 349106004197 Catalytic dyad [active] 349106004198 Sulfatase; Region: Sulfatase; cl10460 349106004199 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 349106004200 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 349106004201 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 includes...; Region: RuvC_resolvase; cd00529 349106004202 active site 349106004203 putative DNA-binding cleft [nucleotide binding]; other site 349106004204 dimer interface [polypeptide binding]; other site 349106004205 META domain; Region: META; cl01245 349106004206 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 349106004207 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106004208 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 349106004209 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 349106004210 N-terminal domain interface [polypeptide binding]; other site 349106004211 dimer interface [polypeptide binding]; other site 349106004212 substrate binding pocket (H-site) [chemical binding]; other site 349106004213 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 349106004214 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 349106004215 dimer interface [polypeptide binding]; other site 349106004216 decamer (pentamer of dimers) interface [polypeptide binding]; other site 349106004217 catalytic triad [active] 349106004218 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 349106004219 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 349106004220 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106004221 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349106004222 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 349106004223 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 349106004224 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 349106004225 dimerization interface [polypeptide binding]; other site 349106004226 putative ATP binding site [chemical binding]; other site 349106004227 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 349106004228 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 349106004229 active site 349106004230 substrate binding site [chemical binding]; other site 349106004231 cosubstrate binding site; other site 349106004232 catalytic site [active] 349106004233 LysE type translocator; Region: LysE; cl00565 349106004234 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 349106004235 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 349106004236 Walker A/P-loop; other site 349106004237 ATP binding site [chemical binding]; other site 349106004238 Q-loop/lid; other site 349106004239 ABC transporter signature motif; other site 349106004240 Walker B; other site 349106004241 D-loop; other site 349106004242 H-loop/switch region; other site 349106004243 NMT1-like family; Region: NMT1_2; cl15260 349106004244 NMT1/THI5 like; Region: NMT1; pfam09084 349106004245 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 349106004246 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106004247 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 349106004248 NAD(P) binding site [chemical binding]; other site 349106004249 catalytic residues [active] 349106004250 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106004251 Helix-turn-helix domains; Region: HTH; cl00088 349106004252 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 349106004253 substrate binding pocket [chemical binding]; other site 349106004254 dimerization interface [polypeptide binding]; other site 349106004255 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 349106004256 tetramer interface [polypeptide binding]; other site 349106004257 active site 349106004258 Mg2+/Mn2+ binding site [ion binding]; other site 349106004259 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 349106004260 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 349106004261 putative active site [active] 349106004262 putative metal binding residues [ion binding]; other site 349106004263 signature motif; other site 349106004264 putative triphosphate binding site [ion binding]; other site 349106004265 CHAD domain; Region: CHAD; cl10506 349106004266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 349106004267 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349106004268 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 349106004269 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 349106004270 Walker A motif; other site 349106004271 ATP binding site [chemical binding]; other site 349106004272 Walker B motif; other site 349106004273 arginine finger; other site 349106004274 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 349106004275 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106004276 Helix-turn-helix domains; Region: HTH; cl00088 349106004277 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 349106004278 putative effector binding pocket; other site 349106004279 dimerization interface [polypeptide binding]; other site 349106004280 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 349106004281 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 349106004282 Walker A motif; other site 349106004283 ATP binding site [chemical binding]; other site 349106004284 Walker B motif; other site 349106004285 arginine finger; other site 349106004286 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 349106004287 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 349106004288 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 349106004289 dimer interface [polypeptide binding]; other site 349106004290 putative anticodon binding site; other site 349106004291 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 349106004292 motif 1; other site 349106004293 active site 349106004294 motif 2; other site 349106004295 motif 3; other site 349106004296 peptide chain release factor 1; Validated; Region: prfA; PRK00591 349106004297 RF-1 domain; Region: RF-1; cl02875 349106004298 RF-1 domain; Region: RF-1; cl02875 349106004299 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 349106004300 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 349106004301 dimer interface [polypeptide binding]; other site 349106004302 active site 349106004303 CoA binding pocket [chemical binding]; other site 349106004304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106004305 AAA domain; Region: AAA_28; pfam13521 349106004306 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 349106004307 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 349106004308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004309 catalytic residue [active] 349106004310 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 349106004311 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 349106004312 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 349106004313 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 349106004314 active site 349106004315 substrate binding site [chemical binding]; other site 349106004316 FMN binding site [chemical binding]; other site 349106004317 putative catalytic residues [active] 349106004318 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 349106004319 eyelet of channel; other site 349106004320 trimer interface [polypeptide binding]; other site 349106004321 Helix-turn-helix domains; Region: HTH; cl00088 349106004322 Winged helix-turn helix; Region: HTH_29; pfam13551 349106004323 Winged helix-turn helix; Region: HTH_33; pfam13592 349106004324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106004325 Helix-turn-helix domains; Region: HTH; cl00088 349106004326 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 349106004327 putative substrate translocation pore; other site 349106004328 Helix-turn-helix domains; Region: HTH; cl00088 349106004329 HTH-like domain; Region: HTH_21; pfam13276 349106004330 Integrase core domain; Region: rve; cl01316 349106004331 Integrase core domain; Region: rve_3; cl15866 349106004332 Integrase core domain; Region: rve; cl01316 349106004333 Integrase core domain; Region: rve_3; cl15866 349106004334 Helix-turn-helix domains; Region: HTH; cl00088 349106004335 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 349106004336 putative transposase OrfB; Reviewed; Region: PHA02517 349106004337 HTH-like domain; Region: HTH_21; pfam13276 349106004338 Integrase core domain; Region: rve; cl01316 349106004339 Integrase core domain; Region: rve_3; cl15866 349106004340 Helix-turn-helix domains; Region: HTH; cl00088 349106004341 HTH-like domain; Region: HTH_21; pfam13276 349106004342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 349106004343 Integrase core domain; Region: rve; cl01316 349106004344 Integrase core domain; Region: rve_3; cl15866 349106004345 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 349106004346 Helix-turn-helix domains; Region: HTH; cl00088 349106004347 Helix-turn-helix domains; Region: HTH; cl00088 349106004348 Helix-turn-helix domains; Region: HTH; cl00088 349106004349 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106004350 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 349106004351 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; cl14891 349106004352 Integrase core domain; Region: rve; cl01316 349106004353 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 349106004354 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; cl12031 349106004355 outer membrane receptor FepA; Provisional; Region: PRK13524 349106004356 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 349106004357 N-terminal plug; other site 349106004358 ligand-binding site [chemical binding]; other site 349106004359 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 349106004360 catalytic triad [active] 349106004361 conserved cis-peptide bond; other site 349106004362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 349106004363 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 349106004364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 349106004365 Nucleoside recognition; Region: Gate; cl00486 349106004366 Integrase core domain; Region: rve; cl01316 349106004367 Integrase core domain; Region: rve_3; cl15866 349106004368 Helix-turn-helix domains; Region: HTH; cl00088 349106004369 Flavin Reductases; Region: FlaRed; cl00801 349106004370 putative transposase OrfB; Reviewed; Region: PHA02517 349106004371 HTH-like domain; Region: HTH_21; pfam13276 349106004372 Integrase core domain; Region: rve; cl01316 349106004373 Integrase core domain; Region: rve_3; cl15866 349106004374 Helix-turn-helix domains; Region: HTH; cl00088 349106004375 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 349106004376 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 349106004377 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 349106004378 Spore germination protein; Region: Spore_permease; cl15802 349106004379 putative arabinose transporter; Provisional; Region: PRK03545 349106004380 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 349106004381 putative substrate translocation pore; other site 349106004382 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 349106004383 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 349106004384 N-terminal plug; other site 349106004385 ligand-binding site [chemical binding]; other site 349106004386 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 349106004387 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 349106004388 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 349106004389 Walker A/P-loop; other site 349106004390 ATP binding site [chemical binding]; other site 349106004391 Q-loop/lid; other site 349106004392 ABC transporter signature motif; other site 349106004393 Walker B; other site 349106004394 D-loop; other site 349106004395 H-loop/switch region; other site 349106004396 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 349106004397 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 349106004398 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 349106004399 FAD binding pocket [chemical binding]; other site 349106004400 conserved FAD binding motif [chemical binding]; other site 349106004401 phosphate binding motif [ion binding]; other site 349106004402 beta-alpha-beta structure motif; other site 349106004403 NAD binding pocket [chemical binding]; other site 349106004404 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 349106004405 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 349106004406 N-terminal plug; other site 349106004407 ligand-binding site [chemical binding]; other site 349106004408 Integrase core domain; Region: rve; cl01316 349106004409 Integrase core domain; Region: rve_3; cl15866 349106004410 Helix-turn-helix domains; Region: HTH; cl00088 349106004411 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 349106004412 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 349106004413 N-terminal plug; other site 349106004414 ligand-binding site [chemical binding]; other site 349106004415 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 349106004416 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 349106004417 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 349106004418 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 349106004419 intersubunit interface [polypeptide binding]; other site 349106004420 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 349106004421 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 349106004422 ABC-ATPase subunit interface; other site 349106004423 dimer interface [polypeptide binding]; other site 349106004424 putative PBP binding regions; other site 349106004425 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 349106004426 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 349106004427 Walker A/P-loop; other site 349106004428 ATP binding site [chemical binding]; other site 349106004429 Q-loop/lid; other site 349106004430 ABC transporter signature motif; other site 349106004431 Walker B; other site 349106004432 D-loop; other site 349106004433 H-loop/switch region; other site 349106004434 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 349106004435 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 349106004436 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 349106004437 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 349106004438 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349106004439 Gram-negative bacterial tonB protein; Region: TonB; cl10048 349106004440 YceI-like domain; Region: YceI; cl01001 349106004441 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 349106004442 Domain of unknown function (DUF305); Region: DUF305; cl15795 349106004443 Uncharacterized membrane protein [Function unknown]; Region: COG3949 349106004444 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 349106004445 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 349106004446 N-terminal plug; other site 349106004447 ligand-binding site [chemical binding]; other site 349106004448 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 349106004449 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 349106004450 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 349106004451 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 349106004452 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 349106004453 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 349106004454 N-terminal plug; other site 349106004455 ligand-binding site [chemical binding]; other site 349106004456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106004457 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106004458 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 349106004459 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 349106004460 peptide binding site [polypeptide binding]; other site 349106004461 dipeptide transporter permease DppB; Provisional; Region: PRK10914 349106004462 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 349106004463 dimer interface [polypeptide binding]; other site 349106004464 conserved gate region; other site 349106004465 putative PBP binding loops; other site 349106004466 ABC-ATPase subunit interface; other site 349106004467 dipeptide transporter; Provisional; Region: PRK10913 349106004468 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 349106004469 dimer interface [polypeptide binding]; other site 349106004470 conserved gate region; other site 349106004471 putative PBP binding loops; other site 349106004472 ABC-ATPase subunit interface; other site 349106004473 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 349106004474 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349106004475 Walker A/P-loop; other site 349106004476 ATP binding site [chemical binding]; other site 349106004477 Q-loop/lid; other site 349106004478 ABC transporter signature motif; other site 349106004479 Walker B; other site 349106004480 D-loop; other site 349106004481 H-loop/switch region; other site 349106004482 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106004483 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 349106004484 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 349106004485 Walker A/P-loop; other site 349106004486 ATP binding site [chemical binding]; other site 349106004487 Q-loop/lid; other site 349106004488 ABC transporter signature motif; other site 349106004489 Walker B; other site 349106004490 D-loop; other site 349106004491 H-loop/switch region; other site 349106004492 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 349106004493 amino acid transporter; Region: 2A0306; TIGR00909 349106004494 Spore germination protein; Region: Spore_permease; cl15802 349106004495 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 349106004496 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 349106004497 inhibitor-cofactor binding pocket; inhibition site 349106004498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106004499 catalytic residue [active] 349106004500 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 349106004501 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 349106004502 tetramerization interface [polypeptide binding]; other site 349106004503 NAD(P) binding site [chemical binding]; other site 349106004504 catalytic residues [active] 349106004505 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106004506 Helix-turn-helix domains; Region: HTH; cl00088 349106004507 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106004508 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 349106004509 CoA-transferase family III; Region: CoA_transf_3; pfam02515 349106004510 acyl-coenzyme A oxidase; Region: PLN02526 349106004511 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 349106004512 FAD binding site [chemical binding]; other site 349106004513 substrate binding pocket [chemical binding]; other site 349106004514 catalytic base [active] 349106004515 Transcriptional regulator [Transcription]; Region: IclR; COG1414 349106004516 Helix-turn-helix domains; Region: HTH; cl00088 349106004517 Bacterial transcriptional regulator; Region: IclR; pfam01614 349106004518 transketolase; Reviewed; Region: PRK12753 349106004519 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 349106004520 TPP-binding site [chemical binding]; other site 349106004521 dimer interface [polypeptide binding]; other site 349106004522 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 349106004523 PYR/PP interface [polypeptide binding]; other site 349106004524 dimer interface [polypeptide binding]; other site 349106004525 TPP binding site [chemical binding]; other site 349106004526 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 349106004527 seryl-tRNA synthetase; Provisional; Region: PRK05431 349106004528 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 349106004529 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 bound...; Region: SerRS_core; cd00770 349106004530 dimer interface [polypeptide binding]; other site 349106004531 active site 349106004532 motif 1; other site 349106004533 motif 2; other site 349106004534 motif 3; other site 349106004535 YcxB-like protein; Region: YcxB; pfam14317 349106004536 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 349106004537 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 349106004538 dimerization interface [polypeptide binding]; other site 349106004539 DPS ferroxidase diiron center [ion binding]; other site 349106004540 ion pore; other site 349106004541 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 349106004542 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 349106004543 transmembrane helices; other site 349106004544 AzlC protein; Region: AzlC; cl00570 349106004545 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 349106004546 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 349106004547 Aspartase; Region: Aspartase; cd01357 349106004548 active sites [active] 349106004549 tetramer interface [polypeptide binding]; other site 349106004550 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 349106004551 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 349106004552 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 349106004553 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 349106004554 [4Fe-4S] binding site [ion binding]; other site 349106004555 molybdopterin cofactor binding site; other site 349106004556 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 349106004557 molybdopterin cofactor binding site; other site 349106004558 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 349106004559 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 349106004560 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106004561 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 349106004562 active site 349106004563 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 349106004564 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349106004565 active site 349106004566 ATP binding site [chemical binding]; other site 349106004567 substrate binding site [chemical binding]; other site 349106004568 activation loop (A-loop); other site 349106004569 benzoate transport; Region: 2A0115; TIGR00895 349106004570 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 349106004571 putative substrate translocation pore; other site 349106004572 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 349106004573 nitrite reductase subunit NirD; Provisional; Region: PRK14989 349106004574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106004575 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 349106004576 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 349106004577 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 349106004578 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 349106004579 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 349106004580 excinuclease ABC subunit B; Provisional; Region: PRK05298 349106004581 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 349106004582 ATP-binding site [chemical binding]; other site 349106004583 ATP binding site [chemical binding]; other site 349106004584 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 349106004585 nucleotide binding region [chemical binding]; other site 349106004586 ATP-binding site [chemical binding]; other site 349106004587 Ultra-violet resistance protein B; Region: UvrB; pfam12344 349106004588 UvrB/uvrC motif; Region: UVR; pfam02151 349106004589 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 349106004590 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 349106004591 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 349106004592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106004593 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 349106004594 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349106004595 PIF1-like helicase; Region: PIF1; pfam05970 349106004596 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106004597 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 349106004598 Helicase; Region: Herpes_Helicase; pfam02689 349106004599 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106004600 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349106004601 NAD(P) binding site [chemical binding]; other site 349106004602 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 349106004603 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 349106004604 Proline dehydrogenase; Region: Pro_dh; cl03282 349106004605 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 349106004606 Glutamate binding site [chemical binding]; other site 349106004607 NAD binding site [chemical binding]; other site 349106004608 catalytic residues [active] 349106004609 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 349106004610 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 349106004611 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 349106004612 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 349106004613 TolB amino-terminal domain; Region: TolB_N; cl00639 349106004614 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 349106004615 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349106004616 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 349106004617 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 349106004618 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 349106004619 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 349106004620 RNA binding surface [nucleotide binding]; other site 349106004621 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349106004622 active site 349106004623 Outer membrane lipoprotein; Region: YfiO; pfam13525 349106004624 CHC2 zinc finger; Region: zf-CHC2; cl15369 349106004625 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 349106004626 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 349106004627 active site 349106004628 metal binding site [ion binding]; metal-binding site 349106004629 interdomain interaction site; other site 349106004630 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 349106004631 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 349106004632 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 349106004633 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 349106004634 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 349106004635 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 349106004636 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 349106004637 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 349106004638 DNA binding residues [nucleotide binding] 349106004639 Protein of unknown function (DUF493); Region: DUF493; cl01102 349106004640 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 349106004641 ATP cone domain; Region: ATP-cone; pfam03477 349106004642 Class I ribonucleotide reductase; Region: RNR_I; cd01679 349106004643 active site 349106004644 dimer interface [polypeptide binding]; other site 349106004645 catalytic residues [active] 349106004646 effector binding site; other site 349106004647 R2 peptide binding site; other site 349106004648 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 349106004649 dimer interface [polypeptide binding]; other site 349106004650 putative radical transfer pathway; other site 349106004651 diiron center [ion binding]; other site 349106004652 tyrosyl radical; other site 349106004653 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 349106004654 catalytic loop [active] 349106004655 iron binding site [ion binding]; other site 349106004656 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 349106004657 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 349106004658 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 349106004659 protein binding site [polypeptide binding]; other site 349106004660 Uncharacterized conserved protein [Function unknown]; Region: COG0327 349106004661 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 349106004662 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 349106004663 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 349106004664 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 catalyze...; Region: LT_GEWL; cd00254 349106004665 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106004666 catalytic residue [active] 349106004667 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 349106004668 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 catalyze...; Region: LT_GEWL; cd00254 349106004669 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106004670 catalytic residue [active] 349106004671 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004672 putative peptidoglycan binding site; other site 349106004673 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004674 putative peptidoglycan binding site; other site 349106004675 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004676 putative peptidoglycan binding site; other site 349106004677 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 349106004678 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004679 putative peptidoglycan binding site; other site 349106004680 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004681 putative peptidoglycan binding site; other site 349106004682 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 349106004683 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004684 putative peptidoglycan binding site; other site 349106004685 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004686 putative peptidoglycan binding site; other site 349106004687 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106004688 putative peptidoglycan binding site; other site 349106004689 Domain of unknown function DUF21; Region: DUF21; pfam01595 349106004690 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 349106004691 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 349106004692 IHF - DNA interface [nucleotide binding]; other site 349106004693 IHF dimer interface [polypeptide binding]; other site 349106004694 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 349106004695 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 349106004696 RNA binding site [nucleotide binding]; other site 349106004697 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 349106004698 RNA binding site [nucleotide binding]; other site 349106004699 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 349106004700 RNA binding site [nucleotide binding]; other site 349106004701 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 of...; Region: S1_RPS1_repeat_ec4; cd05689 349106004702 RNA binding site [nucleotide binding]; other site 349106004703 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 349106004704 RNA binding site [nucleotide binding]; other site 349106004705 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 349106004706 RNA binding site [nucleotide binding]; other site 349106004707 cytidylate kinase; Provisional; Region: cmk; PRK00023 349106004708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106004709 active site 349106004710 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 349106004711 CMP-binding site; other site 349106004712 The sites determining sugar specificity; other site 349106004713 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 349106004714 nucleoside/Zn binding site; other site 349106004715 dimer interface [polypeptide binding]; other site 349106004716 catalytic motif [active] 349106004717 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 349106004718 ligand binding site [chemical binding]; other site 349106004719 active site 349106004720 UGI interface [polypeptide binding]; other site 349106004721 catalytic site [active] 349106004722 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 349106004723 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 349106004724 Walker A motif; other site 349106004725 ATP binding site [chemical binding]; other site 349106004726 Walker B motif; other site 349106004727 arginine finger; other site 349106004728 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 349106004729 Walker A motif; other site 349106004730 ATP binding site [chemical binding]; other site 349106004731 Walker B motif; other site 349106004732 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 349106004733 Membrane transport protein; Region: Mem_trans; cl09117 349106004734 benzoylformate decarboxylase; Reviewed; Region: PRK07092 349106004735 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 349106004736 PYR/PP interface [polypeptide binding]; other site 349106004737 dimer interface [polypeptide binding]; other site 349106004738 TPP binding site [chemical binding]; other site 349106004739 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 349106004740 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 349106004741 TPP-binding site [chemical binding]; other site 349106004742 dimer interface [polypeptide binding]; other site 349106004743 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 349106004744 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 349106004745 PYR/PP interface [polypeptide binding]; other site 349106004746 dimer interface [polypeptide binding]; other site 349106004747 tetramer interface [polypeptide binding]; other site 349106004748 TPP binding site [chemical binding]; other site 349106004749 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 349106004750 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 349106004751 TPP-binding site [chemical binding]; other site 349106004752 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 349106004753 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 349106004754 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106004755 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349106004756 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 349106004757 substrate binding site [chemical binding]; other site 349106004758 active site 349106004759 gamma-glutamyl kinase; Provisional; Region: PRK05429 349106004760 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 349106004761 nucleotide binding site [chemical binding]; other site 349106004762 homotetrameric interface [polypeptide binding]; other site 349106004763 putative phosphate binding site [ion binding]; other site 349106004764 putative allosteric binding site; other site 349106004765 PUA domain; Region: PUA; cl00607 349106004766 GTPase CgtA; Reviewed; Region: obgE; PRK12298 349106004767 GTP1/OBG; Region: GTP1_OBG; pfam01018 349106004768 Obg GTPase; Region: Obg; cd01898 349106004769 G1 box; other site 349106004770 GTP/Mg2+ binding site [chemical binding]; other site 349106004771 Switch I region; other site 349106004772 G2 box; other site 349106004773 G3 box; other site 349106004774 Switch II region; other site 349106004775 G4 box; other site 349106004776 G5 box; other site 349106004777 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 349106004778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106004779 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349106004780 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 349106004781 hypothetical protein; Provisional; Region: PRK08999 349106004782 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 349106004783 active site 349106004784 8-oxo-dGMP binding site [chemical binding]; other site 349106004785 nudix motif; other site 349106004786 metal binding site [ion binding]; metal-binding site 349106004787 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 349106004788 active site 349106004789 thiamine phosphate binding site [chemical binding]; other site 349106004790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 349106004791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 349106004792 Family of unknown function (DUF490); Region: DUF490; pfam04357 349106004793 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 349106004794 Surface antigen; Region: Bac_surface_Ag; cl03097 349106004795 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 349106004796 Domain of unknown function (DUF389); Region: DUF389; cl00781 349106004797 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 349106004798 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 formation of...; Region: AlaRS_core; cd00673 349106004799 motif 1; other site 349106004800 active site 349106004801 motif 2; other site 349106004802 motif 3; other site 349106004803 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 349106004804 DHHA1 domain; Region: DHHA1; pfam02272 349106004805 aspartate kinase; Reviewed; Region: PRK06635 349106004806 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 349106004807 putative nucleotide binding site [chemical binding]; other site 349106004808 putative catalytic residues [active] 349106004809 putative Mg ion binding site [ion binding]; other site 349106004810 putative aspartate binding site [chemical binding]; other site 349106004811 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 349106004812 putative allosteric regulatory site; other site 349106004813 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 349106004814 Global regulator protein family; Region: CsrA; cl00670 349106004815 HopJ type III effector protein; Region: HopJ; pfam08888 349106004816 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14723 349106004817 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 349106004818 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 349106004819 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 349106004820 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 349106004821 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 349106004822 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349106004823 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 349106004824 metal-binding site [ion binding] 349106004825 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 349106004826 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349106004827 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349106004828 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 349106004829 Transglycosylase; Region: Transgly; cl07896 349106004830 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106004831 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 349106004832 TPR motif; other site 349106004833 binding surface 349106004834 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 349106004835 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; cl16911 349106004836 Helix-turn-helix domains; Region: HTH; cl00088 349106004837 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 349106004838 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 349106004839 purine monophosphate binding site [chemical binding]; other site 349106004840 dimer interface [polypeptide binding]; other site 349106004841 putative catalytic residues [active] 349106004842 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 349106004843 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 349106004844 periplasmic folding chaperone; Provisional; Region: PRK10788 349106004845 SurA N-terminal domain; Region: SurA_N_3; cl07813 349106004846 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349106004847 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 349106004848 IHF dimer interface [polypeptide binding]; other site 349106004849 IHF - DNA interface [nucleotide binding]; other site 349106004850 Helix-turn-helix domains; Region: HTH; cl00088 349106004851 Rrf2 family protein; Region: rrf2_super; TIGR00738 349106004852 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 349106004853 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 349106004854 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106004855 catalytic residue [active] 349106004856 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 349106004857 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 349106004858 trimerization site [polypeptide binding]; other site 349106004859 active site 349106004860 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349106004861 co-chaperone HscB; Provisional; Region: hscB; PRK05014 349106004862 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 349106004863 HSP70 interaction site [polypeptide binding]; other site 349106004864 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 349106004865 chaperone protein HscA; Provisional; Region: hscA; PRK05183 349106004866 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 349106004867 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 349106004868 catalytic loop [active] 349106004869 iron binding site [ion binding]; other site 349106004870 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 349106004871 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 349106004872 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 349106004873 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 349106004874 ATP binding site [chemical binding]; other site 349106004875 putative Mg++ binding site [ion binding]; other site 349106004876 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 349106004877 nucleotide binding region [chemical binding]; other site 349106004878 ATP-binding site [chemical binding]; other site 349106004879 TRCF domain; Region: TRCF; cl04088 349106004880 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 349106004881 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 349106004882 NAD binding site [chemical binding]; other site 349106004883 active site 349106004884 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 349106004885 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 349106004886 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 349106004887 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 349106004888 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 349106004889 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 349106004890 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 349106004891 putative MPT binding site; other site 349106004892 Protein of unknown function (DUF541); Region: SIMPL; cl01077 349106004893 glutamine synthetase; Provisional; Region: glnA; PRK09469 349106004894 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 349106004895 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 349106004896 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 349106004897 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 349106004898 glutamine binding [chemical binding]; other site 349106004899 catalytic triad [active] 349106004900 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 349106004901 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 349106004902 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 349106004903 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 349106004904 active site 349106004905 ribulose/triose binding site [chemical binding]; other site 349106004906 phosphate binding site [ion binding]; other site 349106004907 substrate (anthranilate) binding pocket [chemical binding]; other site 349106004908 product (indole) binding pocket [chemical binding]; other site 349106004909 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 349106004910 Smr domain; Region: Smr; cl02619 349106004911 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 349106004912 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 349106004913 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106004914 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 349106004915 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 349106004916 N-terminal plug; other site 349106004917 ligand-binding site [chemical binding]; other site 349106004918 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106004919 Helix-turn-helix domains; Region: HTH; cl00088 349106004920 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349106004921 putative catalytic site [active] 349106004922 putative metal binding site [ion binding]; other site 349106004923 putative phosphate binding site [ion binding]; other site 349106004924 glycerol kinase; Region: glycerol_kin; TIGR01311 349106004925 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 349106004926 N- and C-terminal domain interface [polypeptide binding]; other site 349106004927 active site 349106004928 MgATP binding site [chemical binding]; other site 349106004929 catalytic site [active] 349106004930 metal binding site [ion binding]; metal-binding site 349106004931 glycerol binding site [chemical binding]; other site 349106004932 homotetramer interface [polypeptide binding]; other site 349106004933 homodimer interface [polypeptide binding]; other site 349106004934 FBP binding site [chemical binding]; other site 349106004935 protein IIAGlc interface [polypeptide binding]; other site 349106004936 HemN family oxidoreductase; Provisional; Region: PRK05660 349106004937 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 349106004938 FeS/SAM binding site; other site 349106004939 HemN C-terminal domain; Region: HemN_C; pfam06969 349106004940 multidrug efflux protein; Reviewed; Region: PRK01766 349106004941 MatE; Region: MatE; cl10513 349106004942 MatE; Region: MatE; cl10513 349106004943 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 349106004944 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 349106004945 carboxyltransferase (CT) interaction site; other site 349106004946 biotinylation site [posttranslational modification]; other site 349106004947 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 349106004948 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106004949 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 349106004950 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 349106004951 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 349106004952 ANP binding site [chemical binding]; other site 349106004953 Substrate Binding Site II [chemical binding]; other site 349106004954 Substrate Binding Site I [chemical binding]; other site 349106004955 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 349106004956 active site 349106004957 substrate binding pocket [chemical binding]; other site 349106004958 dimer interface [polypeptide binding]; other site 349106004959 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 349106004960 active site 349106004961 catalytic site [active] 349106004962 substrate binding site [chemical binding]; other site 349106004963 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 349106004964 substrate binding site; other site 349106004965 dimer interface; other site 349106004966 Septum formation initiator; Region: DivIC; cl11433 349106004967 enolase; Provisional; Region: eno; PRK00077 349106004968 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 349106004969 dimer interface [polypeptide binding]; other site 349106004970 metal binding site [ion binding]; metal-binding site 349106004971 substrate binding pocket [chemical binding]; other site 349106004972 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 349106004973 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 349106004974 metal-binding site [ion binding] 349106004975 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 349106004976 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 349106004977 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 349106004978 metal-binding site [ion binding] 349106004979 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; cl00207 349106004980 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 349106004981 NeuB family; Region: NeuB; cl00496 349106004982 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106004983 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106004984 Probable transposase; Region: OrfB_IS605; pfam01385 349106004985 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106004986 CTP synthetase; Validated; Region: pyrG; PRK05380 349106004987 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 349106004988 Catalytic site [active] 349106004989 active site 349106004990 UTP binding site [chemical binding]; other site 349106004991 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 349106004992 active site 349106004993 putative oxyanion hole; other site 349106004994 catalytic triad [active] 349106004995 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 349106004996 eyelet of channel; other site 349106004997 trimer interface [polypeptide binding]; other site 349106004998 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 349106004999 active site 349106005000 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 349106005001 active site 349106005002 dinuclear metal binding site [ion binding]; other site 349106005003 dimerization interface [polypeptide binding]; other site 349106005004 DDE superfamily endonuclease; Region: DDE_4; cl15789 349106005005 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 349106005006 DDE superfamily endonuclease; Region: DDE_4; cl15789 349106005007 polyphosphate kinase; Provisional; Region: PRK05443 349106005008 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 349106005009 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 349106005010 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 349106005011 putative active site [active] 349106005012 catalytic site [active] 349106005013 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 349106005014 putative domain interface [polypeptide binding]; other site 349106005015 putative active site [active] 349106005016 catalytic site [active] 349106005017 Transglycosylase; Region: Transgly; cl07896 349106005018 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106005019 L-lactate permease; Region: Lactate_perm; cl00701 349106005020 glycolate transporter; Provisional; Region: PRK09695 349106005021 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 349106005022 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 349106005023 active site 349106005024 substrate binding site [chemical binding]; other site 349106005025 FMN binding site [chemical binding]; other site 349106005026 putative catalytic residues [active] 349106005027 intramembrane serine protease GlpG; Provisional; Region: PRK10907 349106005028 Rhomboid family; Region: Rhomboid; cl11446 349106005029 MltA-interacting protein MipA; Region: MipA; cl01504 349106005030 ferredoxin-NADP reductase; Provisional; Region: PRK10926 349106005031 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 349106005032 FAD binding pocket [chemical binding]; other site 349106005033 FAD binding motif [chemical binding]; other site 349106005034 phosphate binding motif [ion binding]; other site 349106005035 beta-alpha-beta structure motif; other site 349106005036 NAD binding pocket [chemical binding]; other site 349106005037 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 349106005038 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349106005039 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 349106005040 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349106005041 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 349106005042 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 349106005043 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 349106005044 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 349106005045 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 349106005046 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 349106005047 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 349106005048 4Fe-4S binding domain; Region: Fer4; cl02805 349106005049 4Fe-4S binding domain; Region: Fer4; cl02805 349106005050 NADH dehydrogenase; Region: NADHdh; cl00469 349106005051 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 349106005052 catalytic loop [active] 349106005053 iron binding site [ion binding]; other site 349106005054 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 349106005055 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 349106005056 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 349106005057 [4Fe-4S] binding site [ion binding]; other site 349106005058 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 349106005059 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 349106005060 SLBB domain; Region: SLBB; pfam10531 349106005061 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 349106005062 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 349106005063 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 349106005064 putative dimer interface [polypeptide binding]; other site 349106005065 [2Fe-2S] cluster binding site [ion binding]; other site 349106005066 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 349106005067 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 349106005068 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 349106005069 NADH dehydrogenase subunit B; Validated; Region: PRK06411 349106005070 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 349106005071 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 349106005072 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349106005073 trimer interface [polypeptide binding]; other site 349106005074 active site 349106005075 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 349106005076 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 349106005077 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 349106005078 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 349106005079 MgtE intracellular N domain; Region: MgtE_N; cl15244 349106005080 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 349106005081 Divalent cation transporter; Region: MgtE; cl00786 349106005082 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 349106005083 classical (c) SDRs; Region: SDR_c; cd05233 349106005084 NAD(P) binding site [chemical binding]; other site 349106005085 active site 349106005086 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349106005087 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 349106005088 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 349106005089 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 349106005090 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349106005091 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 349106005092 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 349106005093 active site 349106005094 HIGH motif; other site 349106005095 KMSKS motif; other site 349106005096 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 349106005097 anticodon binding site; other site 349106005098 tRNA binding surface [nucleotide binding]; other site 349106005099 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 349106005100 dimer interface [polypeptide binding]; other site 349106005101 putative tRNA-binding site [nucleotide binding]; other site 349106005102 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106005103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106005104 Probable transposase; Region: OrfB_IS605; pfam01385 349106005105 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106005106 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 349106005107 zinc binding site [ion binding]; other site 349106005108 putative ligand binding site [chemical binding]; other site 349106005109 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 349106005110 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 349106005111 zinc binding site [ion binding]; other site 349106005112 putative ligand binding site [chemical binding]; other site 349106005113 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 349106005114 TM-ABC transporter signature motif; other site 349106005115 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 349106005116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106005117 Walker A/P-loop; other site 349106005118 ATP binding site [chemical binding]; other site 349106005119 Q-loop/lid; other site 349106005120 ABC transporter signature motif; other site 349106005121 Walker B; other site 349106005122 D-loop; other site 349106005123 H-loop/switch region; other site 349106005124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005125 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 349106005126 NAD(P) binding pocket [chemical binding]; other site 349106005127 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 349106005128 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 349106005129 dimer interface [polypeptide binding]; other site 349106005130 active site 349106005131 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106005132 catalytic residues [active] 349106005133 substrate binding site [chemical binding]; other site 349106005134 Septum formation; Region: Septum_form; pfam13845 349106005135 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 349106005136 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 349106005137 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 349106005138 Walker A motif; other site 349106005139 ATP binding site [chemical binding]; other site 349106005140 Walker B motif; other site 349106005141 arginine finger; other site 349106005142 YcgL domain; Region: YcgL; cl01189 349106005143 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 349106005144 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 349106005145 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 349106005146 lipoyl attachment site [posttranslational modification]; other site 349106005147 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 349106005148 dimer interface [polypeptide binding]; other site 349106005149 FMN binding site [chemical binding]; other site 349106005150 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 349106005151 dimer interface [polypeptide binding]; other site 349106005152 glycine dehydrogenase; Provisional; Region: PRK05367 349106005153 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 349106005154 tetramer interface [polypeptide binding]; other site 349106005155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005156 catalytic residue [active] 349106005157 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 349106005158 tetramer interface [polypeptide binding]; other site 349106005159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005160 catalytic residue [active] 349106005161 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; cl12031 349106005162 ribonuclease D; Region: rnd; TIGR01388 349106005163 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 349106005164 catalytic site [active] 349106005165 putative active site [active] 349106005166 putative substrate binding site [chemical binding]; other site 349106005167 HRDC domain; Region: HRDC; cl02578 349106005168 recombination protein RecR; Reviewed; Region: recR; PRK00076 349106005169 RecR protein; Region: RecR; pfam02132 349106005170 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 349106005171 putative active site [active] 349106005172 putative metal-binding site [ion binding]; other site 349106005173 tetramer interface [polypeptide binding]; other site 349106005174 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 349106005175 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 349106005176 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 349106005177 homodimer interface [polypeptide binding]; other site 349106005178 substrate-cofactor binding pocket; other site 349106005179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005180 catalytic residue [active] 349106005181 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 349106005182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005183 NAD(P) binding pocket [chemical binding]; other site 349106005184 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 349106005185 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 349106005186 putative active site [active] 349106005187 catalytic site [active] 349106005188 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 349106005189 putative active site [active] 349106005190 catalytic site [active] 349106005191 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 349106005192 metabolite-proton symporter; Region: 2A0106; TIGR00883 349106005193 putative substrate translocation pore; other site 349106005194 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 349106005195 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 349106005196 FMN binding site [chemical binding]; other site 349106005197 active site 349106005198 catalytic residues [active] 349106005199 substrate binding site [chemical binding]; other site 349106005200 CAAX protease self-immunity; Region: Abi; cl00558 349106005201 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106005202 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; cl12031 349106005203 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 349106005204 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 349106005205 tandem repeat interface [polypeptide binding]; other site 349106005206 oligomer interface [polypeptide binding]; other site 349106005207 active site residues [active] 349106005208 Competence protein; Region: Competence; cl00471 349106005209 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 349106005210 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 349106005211 Walker A/P-loop; other site 349106005212 ATP binding site [chemical binding]; other site 349106005213 Q-loop/lid; other site 349106005214 ABC transporter signature motif; other site 349106005215 Walker B; other site 349106005216 D-loop; other site 349106005217 H-loop/switch region; other site 349106005218 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 349106005219 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349106005220 FtsX-like permease family; Region: FtsX; cl15850 349106005221 SCP-2 sterol transfer family; Region: SCP2; cl01225 349106005222 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 349106005223 Low-spin heme binding site [chemical binding]; other site 349106005224 Putative water exit pathway; other site 349106005225 Binuclear center (active site) [active] 349106005226 Putative proton exit pathway; other site 349106005227 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 349106005228 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 349106005229 Cytochrome cbb oxidase CcoQ. 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 of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 349106005230 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 349106005231 Cytochrome c; Region: Cytochrom_C; cl11414 349106005232 Cytochrome c; Region: Cytochrom_C; cl11414 349106005233 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 349106005234 4Fe-4S binding domain; Region: Fer4_5; pfam12801 349106005235 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 349106005236 FixH; Region: FixH; cl01254 349106005237 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 349106005238 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 349106005239 Ligand Binding Site [chemical binding]; other site 349106005240 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 349106005241 Substrate binding site; other site 349106005242 metal-binding site 349106005243 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106005244 Phosphotransferase enzyme family; Region: APH; pfam01636 349106005245 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 349106005246 Organic solvent tolerance protein; Region: OstA_C; pfam04453 349106005247 SurA N-terminal domain; Region: SurA_N_3; cl07813 349106005248 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 349106005249 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349106005250 PPIC-type PPIASE domain; Region: Rotamase; cl08278 349106005251 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106005252 putative peptidoglycan binding site; other site 349106005253 Peptidase family M23; Region: Peptidase_M23; pfam01551 349106005254 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 349106005255 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 349106005256 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 349106005257 GTP-binding protein Der; Reviewed; Region: PRK00093 349106005258 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 349106005259 G1 box; other site 349106005260 GTP/Mg2+ binding site [chemical binding]; other site 349106005261 Switch I region; other site 349106005262 G2 box; other site 349106005263 Switch II region; other site 349106005264 G3 box; other site 349106005265 G4 box; other site 349106005266 G5 box; other site 349106005267 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 349106005268 G1 box; other site 349106005269 GTP/Mg2+ binding site [chemical binding]; other site 349106005270 Switch I region; other site 349106005271 G2 box; other site 349106005272 G3 box; other site 349106005273 Switch II region; other site 349106005274 G4 box; other site 349106005275 G5 box; other site 349106005276 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 349106005277 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 349106005278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005279 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 349106005280 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; cl16911 349106005281 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 349106005282 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 349106005283 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 349106005284 putative active site [active] 349106005285 metal binding site [ion binding]; metal-binding site 349106005286 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 349106005287 Ligand Binding Site [chemical binding]; other site 349106005288 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 349106005289 catalytic triad [active] 349106005290 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 349106005291 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106005292 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106005293 Mechanosensitive ion channel; Region: MS_channel; pfam00924 349106005294 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 349106005295 THUMP domain; Region: THUMP; cl12076 349106005296 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; cl16911 349106005297 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 349106005298 S-adenosylmethionine binding site [chemical binding]; other site 349106005299 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 349106005300 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 349106005301 S-adenosylmethionine binding site [chemical binding]; other site 349106005302 muropeptide transporter; Validated; Region: ampG; PRK11010 349106005303 muropeptide transporter; Validated; Region: ampG; PRK11010 349106005304 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 349106005305 Helix-turn-helix domains; Region: HTH; cl00088 349106005306 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 349106005307 dimerization interface [polypeptide binding]; other site 349106005308 substrate binding site [chemical binding]; other site 349106005309 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 349106005310 TraX protein; Region: TraX; cl05434 349106005311 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 349106005312 Trp docking motif [polypeptide binding]; other site 349106005313 putative active site [active] 349106005314 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 349106005315 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 349106005316 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106005317 Probable transposase; Region: OrfB_IS605; pfam01385 349106005318 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106005319 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 349106005320 Membrane transport protein; Region: Mem_trans; cl09117 349106005321 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 349106005322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005323 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 349106005324 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349106005325 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349106005326 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349106005327 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 349106005328 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349106005329 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349106005330 Peptidase M15; Region: Peptidase_M15_3; cl01194 349106005331 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 349106005332 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 349106005333 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 349106005334 FeS/SAM binding site; other site 349106005335 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 349106005336 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 349106005337 putative ADP-binding pocket [chemical binding]; other site 349106005338 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 349106005339 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349106005340 putative catalytic site [active] 349106005341 putative metal binding site [ion binding]; other site 349106005342 putative phosphate binding site [ion binding]; other site 349106005343 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 349106005344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005345 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 349106005346 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 349106005347 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 349106005348 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 349106005349 active site 349106005350 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 349106005351 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 349106005352 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 349106005353 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 349106005354 trimer interface [polypeptide binding]; other site 349106005355 active site 349106005356 UDP-GlcNAc binding site [chemical binding]; other site 349106005357 lipid binding site [chemical binding]; lipid-binding site 349106005358 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 349106005359 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349106005360 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349106005361 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349106005362 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349106005363 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 349106005364 Surface antigen; Region: Bac_surface_Ag; cl03097 349106005365 zinc metallopeptidase RseP; Provisional; Region: PRK10779 349106005366 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 349106005367 active site 349106005368 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 349106005369 protein binding site [polypeptide binding]; other site 349106005370 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 349106005371 protein binding site [polypeptide binding]; other site 349106005372 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 349106005373 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 349106005374 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 349106005375 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 349106005376 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 349106005377 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 349106005378 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 349106005379 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 349106005380 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 349106005381 catalytic residue [active] 349106005382 putative FPP diphosphate binding site; other site 349106005383 putative FPP binding hydrophobic cleft; other site 349106005384 dimer interface [polypeptide binding]; other site 349106005385 putative IPP diphosphate binding site; other site 349106005386 ribosome recycling factor; Reviewed; Region: frr; PRK00083 349106005387 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 round of...; Region: RRF; cd00520 349106005388 hinge region; other site 349106005389 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 349106005390 putative nucleotide binding site [chemical binding]; other site 349106005391 uridine monophosphate binding site [chemical binding]; other site 349106005392 homohexameric interface [polypeptide binding]; other site 349106005393 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 349106005394 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349106005395 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 349106005396 FeS/SAM binding site; other site 349106005397 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 349106005398 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 349106005399 dimer interface [polypeptide binding]; other site 349106005400 phosphorylation site [posttranslational modification] 349106005401 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 349106005402 ATP binding site [chemical binding]; other site 349106005403 Mg2+ binding site [ion binding]; other site 349106005404 G-X-G motif; other site 349106005405 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 349106005406 Response regulator receiver domain; Region: Response_reg; pfam00072 349106005407 active site 349106005408 phosphorylation site [posttranslational modification] 349106005409 intermolecular recognition site; other site 349106005410 dimerization interface [polypeptide binding]; other site 349106005411 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 349106005412 Walker A motif; other site 349106005413 ATP binding site [chemical binding]; other site 349106005414 Walker B motif; other site 349106005415 arginine finger; other site 349106005416 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 349106005417 Helix-turn-helix domains; Region: HTH; cl00088 349106005418 Catalytic domain of Protein Kinases; Region: PKc; cd00180 349106005419 active site 349106005420 ATP binding site [chemical binding]; other site 349106005421 substrate binding site [chemical binding]; other site 349106005422 activation loop (A-loop); other site 349106005423 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106005424 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 349106005425 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 349106005426 Walker A motif; other site 349106005427 ATP binding site [chemical binding]; other site 349106005428 Walker B motif; other site 349106005429 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106005430 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 349106005431 putative active site [active] 349106005432 putative catalytic site [active] 349106005433 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 349106005434 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 349106005435 GDP-binding site [chemical binding]; other site 349106005436 ACT binding site; other site 349106005437 IMP binding site; other site 349106005438 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 349106005439 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 ATP-dependent...; Region: HisRS-like_core; cd00773 349106005440 dimer interface [polypeptide binding]; other site 349106005441 motif 1; other site 349106005442 active site 349106005443 motif 2; other site 349106005444 motif 3; other site 349106005445 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 349106005446 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 349106005447 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 349106005448 Phosphate-starvation-inducible E; Region: PsiE; cl01264 349106005449 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 349106005450 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 349106005451 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 349106005452 homodimer interface [polypeptide binding]; other site 349106005453 NADP binding site [chemical binding]; other site 349106005454 substrate binding site [chemical binding]; other site 349106005455 Fimbrial protein; Region: Fimbrial; cl01416 349106005456 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 349106005457 PapC N-terminal domain; Region: PapC_N; pfam13954 349106005458 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 349106005459 PapC C-terminal domain; Region: PapC_C; pfam13953 349106005460 putative chaperone protein EcpD; Provisional; Region: PRK09926 349106005461 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 349106005462 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 349106005463 Fimbrial protein; Region: Fimbrial; cl01416 349106005464 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 349106005465 dimer interface [polypeptide binding]; other site 349106005466 catalytic triad [active] 349106005467 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 349106005468 dimer interface [polypeptide binding]; other site 349106005469 allosteric magnesium binding site [ion binding]; other site 349106005470 active site 349106005471 aspartate-rich active site metal binding site; other site 349106005472 Schiff base residues; other site 349106005473 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106005474 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 349106005475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106005476 Family description; Region: UvrD_C_2; cl15862 349106005477 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 349106005478 MgtE intracellular N domain; Region: MgtE_N; cl15244 349106005479 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 349106005480 Divalent cation transporter; Region: MgtE; cl00786 349106005481 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 349106005482 trimer interface [polypeptide binding]; other site 349106005483 active site 349106005484 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 349106005485 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 349106005486 active site 349106005487 substrate binding site [chemical binding]; other site 349106005488 metal binding site [ion binding]; metal-binding site 349106005489 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 349106005490 feedback inhibition sensing region; other site 349106005491 homohexameric interface [polypeptide binding]; other site 349106005492 nucleotide binding site [chemical binding]; other site 349106005493 N-acetyl-L-glutamate binding site [chemical binding]; other site 349106005494 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 349106005495 ArsC family; Region: ArsC; pfam03960 349106005496 putative catalytic residues [active] 349106005497 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 349106005498 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 349106005499 HIGH motif; other site 349106005500 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349106005501 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106005502 active site 349106005503 KMSKS motif; other site 349106005504 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 349106005505 tRNA binding surface [nucleotide binding]; other site 349106005506 Lipopolysaccharide-assembly; Region: LptE; cl01125 349106005507 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 349106005508 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 349106005509 macrolide transporter subunit MacA; Provisional; Region: PRK11578 349106005510 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 349106005511 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 349106005512 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 349106005513 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 349106005514 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 349106005515 Walker A/P-loop; other site 349106005516 ATP binding site [chemical binding]; other site 349106005517 Q-loop/lid; other site 349106005518 ABC transporter signature motif; other site 349106005519 Walker B; other site 349106005520 D-loop; other site 349106005521 H-loop/switch region; other site 349106005522 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 349106005523 FtsX-like permease family; Region: FtsX; cl15850 349106005524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106005525 hydroperoxidase II; Provisional; Region: katE; PRK11249 349106005526 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 349106005527 tetramer interface [polypeptide binding]; other site 349106005528 heme binding pocket [chemical binding]; other site 349106005529 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 349106005530 domain interactions; other site 349106005531 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 349106005532 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106005533 putative peptidoglycan binding site; other site 349106005534 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 349106005535 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 349106005536 putative peptidoglycan binding site; other site 349106005537 Sporulation related domain; Region: SPOR; cl10051 349106005538 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 349106005539 ThiS interaction site; other site 349106005540 putative active site [active] 349106005541 tetramer interface [polypeptide binding]; other site 349106005542 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 349106005543 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 349106005544 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 349106005545 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 349106005546 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 349106005547 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 349106005548 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 349106005549 Peptidase M16C associated; Region: M16C_assoc; pfam08367 349106005550 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 349106005551 catalytic core [active] 349106005552 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 adenosine...; Region: adenosine_kinase; cd01168 349106005553 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 349106005554 substrate binding site [chemical binding]; other site 349106005555 ATP binding site [chemical binding]; other site 349106005556 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 349106005557 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 349106005558 homodimer interface [polypeptide binding]; other site 349106005559 substrate-cofactor binding pocket; other site 349106005560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106005561 catalytic residue [active] 349106005562 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 349106005563 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 349106005564 NifU-like domain; Region: NifU; cl00484 349106005565 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 349106005566 Domain of unknown function DUF21; Region: DUF21; pfam01595 349106005567 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 349106005568 Transporter associated domain; Region: CorC_HlyC; cl08393 349106005569 Predicted permeases [General function prediction only]; Region: RarD; COG2962 349106005570 EamA-like transporter family; Region: EamA; cl01037 349106005571 glutathionine S-transferase; Provisional; Region: PRK10542 349106005572 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 349106005573 C-terminal domain interface [polypeptide binding]; other site 349106005574 GSH binding site (G-site) [chemical binding]; other site 349106005575 dimer interface [polypeptide binding]; other site 349106005576 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 349106005577 dimer interface [polypeptide binding]; other site 349106005578 N-terminal domain interface [polypeptide binding]; other site 349106005579 substrate binding pocket (H-site) [chemical binding]; other site 349106005580 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 349106005581 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106005582 active site 349106005583 nucleotide binding site [chemical binding]; other site 349106005584 HIGH motif; other site 349106005585 KMSKS motif; other site 349106005586 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 349106005587 nudix motif; other site 349106005588 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 349106005589 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 349106005590 active site 349106005591 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 349106005592 active site 349106005593 catalytic triad [active] 349106005594 oxyanion hole [active] 349106005595 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 349106005596 dihydroorotase; Provisional; Region: PRK07369 349106005597 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 349106005598 active site 349106005599 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 349106005600 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 349106005601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005602 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 349106005603 AMP binding site [chemical binding]; other site 349106005604 metal binding site [ion binding]; metal-binding site 349106005605 active site 349106005606 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 349106005607 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 349106005608 hypothetical protein; Region: PHA01752 349106005609 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 349106005610 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 349106005611 elongation factor Tu; Reviewed; Region: PRK00049 349106005612 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349106005613 G1 box; other site 349106005614 GEF interaction site [polypeptide binding]; other site 349106005615 GTP/Mg2+ binding site [chemical binding]; other site 349106005616 Switch I region; other site 349106005617 G2 box; other site 349106005618 G3 box; other site 349106005619 Switch II region; other site 349106005620 G4 box; other site 349106005621 G5 box; other site 349106005622 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 349106005623 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 349106005624 Antibiotic Binding Site [chemical binding]; other site 349106005625 elongation factor G; Reviewed; Region: PRK00007 349106005626 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 349106005627 G1 box; other site 349106005628 putative GEF interaction site [polypeptide binding]; other site 349106005629 GTP/Mg2+ binding site [chemical binding]; other site 349106005630 Switch I region; other site 349106005631 G2 box; other site 349106005632 G3 box; other site 349106005633 Switch II region; other site 349106005634 G4 box; other site 349106005635 G5 box; other site 349106005636 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 349106005637 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 349106005638 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 349106005639 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 349106005640 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 349106005641 S17 interaction site [polypeptide binding]; other site 349106005642 S8 interaction site; other site 349106005643 16S rRNA interaction site [nucleotide binding]; other site 349106005644 streptomycin interaction site [chemical binding]; other site 349106005645 23S rRNA interaction site [nucleotide binding]; other site 349106005646 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 349106005647 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 349106005648 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 349106005649 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 349106005650 active site 349106005651 catalytic tetrad [active] 349106005652 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349106005653 putative acyl-acceptor binding pocket; other site 349106005654 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 349106005655 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 349106005656 putative acyl-acceptor binding pocket; other site 349106005657 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 349106005658 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 349106005659 HflX GTPase family; Region: HflX; cd01878 349106005660 G1 box; other site 349106005661 GTP/Mg2+ binding site [chemical binding]; other site 349106005662 Switch I region; other site 349106005663 G2 box; other site 349106005664 G3 box; other site 349106005665 Switch II region; other site 349106005666 G4 box; other site 349106005667 G5 box; other site 349106005668 LrgA family; Region: LrgA; cl00608 349106005669 LrgB-like family; Region: LrgB; cl00596 349106005670 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 349106005671 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 catalyze...; Region: LT_GEWL; cd00254 349106005672 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106005673 catalytic residue [active] 349106005674 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 349106005675 malate dehydrogenase; Provisional; Region: PRK05442 349106005676 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 349106005677 NAD(P) binding site [chemical binding]; other site 349106005678 dimer interface [polypeptide binding]; other site 349106005679 malate binding site [chemical binding]; other site 349106005680 lytic murein transglycosylase; Provisional; Region: PRK11619 349106005681 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 catalyze...; Region: LT_GEWL; cd00254 349106005682 N-acetyl-D-glucosamine binding site [chemical binding]; other site 349106005683 catalytic residue [active] 349106005684 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 349106005685 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 349106005686 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 349106005687 FeS/SAM binding site; other site 349106005688 TRAM domain; Region: TRAM; cl01282 349106005689 LysE type translocator; Region: LysE; cl00565 349106005690 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 349106005691 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 349106005692 metal binding site [ion binding]; metal-binding site 349106005693 putative dimer interface [polypeptide binding]; other site 349106005694 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 349106005695 Cell division protein ZapA; Region: ZapA; cl01146 349106005696 NAD synthetase; Provisional; Region: PRK13981 349106005697 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 349106005698 multimer interface [polypeptide binding]; other site 349106005699 active site 349106005700 catalytic triad [active] 349106005701 protein interface 1 [polypeptide binding]; other site 349106005702 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 349106005703 homodimer interface [polypeptide binding]; other site 349106005704 NAD binding pocket [chemical binding]; other site 349106005705 ATP binding pocket [chemical binding]; other site 349106005706 Mg binding site [ion binding]; other site 349106005707 active-site loop [active] 349106005708 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 349106005709 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 349106005710 catalytic residue [active] 349106005711 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 349106005712 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106005713 Walker A motif; other site 349106005714 ATP binding site [chemical binding]; other site 349106005715 Walker B motif; other site 349106005716 ferric uptake regulator; Provisional; Region: fur; PRK09462 349106005717 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 349106005718 metal binding site 2 [ion binding]; metal-binding site 349106005719 putative DNA binding helix; other site 349106005720 metal binding site 1 [ion binding]; metal-binding site 349106005721 dimer interface [polypeptide binding]; other site 349106005722 structural Zn2+ binding site [ion binding]; other site 349106005723 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 349106005724 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 349106005725 Cytochrome c; Region: Cytochrom_C; cl11414 349106005726 Cytochrome c; Region: Cytochrom_C; cl11414 349106005727 Cytochrome c; Region: Cytochrom_C; cl11414 349106005728 Predicted GTPase [General function prediction only]; Region: COG0218 349106005729 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 349106005730 G1 box; other site 349106005731 GTP/Mg2+ binding site [chemical binding]; other site 349106005732 Switch I region; other site 349106005733 G2 box; other site 349106005734 G3 box; other site 349106005735 Switch II region; other site 349106005736 G4 box; other site 349106005737 G5 box; other site 349106005738 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 349106005739 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106005740 active site 349106005741 HIGH motif; other site 349106005742 nucleotide binding site [chemical binding]; other site 349106005743 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 349106005744 active site 349106005745 KMSKS motif; other site 349106005746 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 349106005747 tRNA binding surface [nucleotide binding]; other site 349106005748 anticodon binding site; other site 349106005749 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 349106005750 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 349106005751 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 349106005752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005753 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349106005754 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 349106005755 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 349106005756 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 349106005757 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 349106005758 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 349106005759 Trp docking motif [polypeptide binding]; other site 349106005760 active site 349106005761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 349106005762 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 349106005763 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 ATP-dependent...; Region: HisRS-like_core; cd00773 349106005764 dimer interface [polypeptide binding]; other site 349106005765 motif 1; other site 349106005766 active site 349106005767 motif 2; other site 349106005768 motif 3; other site 349106005769 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 349106005770 anticodon binding site; other site 349106005771 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 349106005772 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349106005773 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 349106005774 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 349106005775 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 349106005776 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 349106005777 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 349106005778 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 349106005779 TPR motif; other site 349106005780 binding surface 349106005781 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 349106005782 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 349106005783 FeS/SAM binding site; other site 349106005784 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 349106005785 active site 349106005786 multimer interface [polypeptide binding]; other site 349106005787 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 349106005788 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 349106005789 active site 349106005790 FMN binding site [chemical binding]; other site 349106005791 substrate binding site [chemical binding]; other site 349106005792 3Fe-4S cluster binding site [ion binding]; other site 349106005793 Predicted periplasmic protein [Function unknown]; Region: COG3698 349106005794 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 349106005795 GTP-binding protein YchF; Reviewed; Region: PRK09601 349106005796 YchF GTPase; Region: YchF; cd01900 349106005797 G1 box; other site 349106005798 GTP/Mg2+ binding site [chemical binding]; other site 349106005799 Switch I region; other site 349106005800 G2 box; other site 349106005801 Switch II region; other site 349106005802 G3 box; other site 349106005803 G4 box; other site 349106005804 G5 box; other site 349106005805 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 349106005806 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 349106005807 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349106005808 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 349106005809 Helix-turn-helix domains; Region: HTH; cl00088 349106005810 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 349106005811 Helix-turn-helix domains; Region: HTH; cl00088 349106005812 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349106005813 active site 349106005814 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 349106005815 homodimer interaction site [polypeptide binding]; other site 349106005816 cofactor binding site; other site 349106005817 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 349106005818 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 349106005819 FAD binding pocket [chemical binding]; other site 349106005820 FAD binding motif [chemical binding]; other site 349106005821 phosphate binding motif [ion binding]; other site 349106005822 beta-alpha-beta structure motif; other site 349106005823 NAD binding pocket [chemical binding]; other site 349106005824 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106005825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106005826 Probable transposase; Region: OrfB_IS605; pfam01385 349106005827 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106005828 BCCT family transporter; Region: BCCT; cl00569 349106005829 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 349106005830 PLD-like domain; Region: PLDc_2; pfam13091 349106005831 putative homodimer interface [polypeptide binding]; other site 349106005832 putative active site [active] 349106005833 catalytic site [active] 349106005834 DEAD-like helicases superfamily; Region: DEXDc; smart00487 349106005835 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 349106005836 ATP binding site [chemical binding]; other site 349106005837 putative Mg++ binding site [ion binding]; other site 349106005838 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 349106005839 nucleotide binding region [chemical binding]; other site 349106005840 ATP-binding site [chemical binding]; other site 349106005841 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 349106005842 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 349106005843 active site 349106005844 8-oxo-dGMP binding site [chemical binding]; other site 349106005845 nudix motif; other site 349106005846 metal binding site [ion binding]; metal-binding site 349106005847 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 349106005848 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 349106005849 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 349106005850 active site 349106005851 DNA polymerase IV; Validated; Region: PRK02406 349106005852 DNA binding site [nucleotide binding] 349106005853 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 349106005854 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 349106005855 GAF domain; Region: GAF; cl15785 349106005856 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 349106005857 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 349106005858 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 349106005859 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 349106005860 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 349106005861 active site 349106005862 homodimer interface [polypeptide binding]; other site 349106005863 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 349106005864 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 349106005865 dimerization interface 3.5A [polypeptide binding]; other site 349106005866 active site 349106005867 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 349106005868 rRNA binding site [nucleotide binding]; other site 349106005869 predicted 30S ribosome binding site; other site 349106005870 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349106005871 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349106005872 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 349106005873 tartrate dehydrogenase; Provisional; Region: PRK08194 349106005874 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 349106005875 substrate binding site [chemical binding]; other site 349106005876 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 349106005877 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 349106005878 substrate binding site [chemical binding]; other site 349106005879 ligand binding site [chemical binding]; other site 349106005880 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106005881 Helix-turn-helix domains; Region: HTH; cl00088 349106005882 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 349106005883 dimerization interface [polypeptide binding]; other site 349106005884 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 349106005885 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 349106005886 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 349106005887 Sodium:solute symporter family; Region: SSF; cl00456 349106005888 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 349106005889 TPR motif; other site 349106005890 Tetratricopeptide repeat; Region: TPR_16; pfam13432 349106005891 binding surface 349106005892 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106005893 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005894 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005895 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005896 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005897 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005898 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005899 TPR/MLP1/MLP2-like protein; Region: TPR_MLP1_2; pfam07926 349106005900 bZIP transcription factor; Region: bZIP_1; cl02576 349106005901 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005902 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 349106005903 Helix-turn-helix domains; Region: HTH; cl00088 349106005904 Integrase core domain; Region: rve; cl01316 349106005905 Integrase core domain; Region: rve_3; cl15866 349106005906 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106005907 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106005908 SlyX; Region: SlyX; cl01090 349106005909 ABC transporter ATPase component; Reviewed; Region: PRK11147 349106005910 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 349106005911 Walker A/P-loop; other site 349106005912 ATP binding site [chemical binding]; other site 349106005913 Q-loop/lid; other site 349106005914 ABC transporter signature motif; other site 349106005915 Walker B; other site 349106005916 D-loop; other site 349106005917 H-loop/switch region; other site 349106005918 ABC transporter; Region: ABC_tran_2; pfam12848 349106005919 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349106005920 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 349106005921 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 349106005922 putative acyl-acceptor binding pocket; other site 349106005923 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 349106005924 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 349106005925 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 349106005926 active site 349106005927 HIGH motif; other site 349106005928 dimer interface [polypeptide binding]; other site 349106005929 KMSKS motif; other site 349106005930 ScpA/B protein; Region: ScpA_ScpB; cl00598 349106005931 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 349106005932 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 349106005933 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 349106005934 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 349106005935 RNA binding surface [nucleotide binding]; other site 349106005936 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 349106005937 probable active site [active] 349106005938 LysE type translocator; Region: LysE; cl00565 349106005939 MarC family integral membrane protein; Region: MarC; cl00919 349106005940 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 349106005941 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 349106005942 dimerization interface [polypeptide binding]; other site 349106005943 active site 349106005944 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 349106005945 Quinolinate synthetase A protein; Region: NadA; cl00420 349106005946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005947 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 349106005948 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 349106005949 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 349106005950 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 349106005951 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106005952 ligand binding site [chemical binding]; other site 349106005953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005954 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 349106005955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106005956 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 349106005957 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 349106005958 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106005959 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 349106005960 Transglycosylase SLT domain; Region: SLT_2; pfam13406 349106005961 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 349106005962 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349106005963 fumarate hydratase; Reviewed; Region: fumC; PRK00485 349106005964 Class II fumarases; Region: Fumarase_classII; cd01362 349106005965 active site 349106005966 tetramer interface [polypeptide binding]; other site 349106005967 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 349106005968 Predicted permease [General function prediction only]; Region: COG2056 349106005969 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 349106005970 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 349106005971 Found in ATP-dependent protease La (LON); Region: LON; smart00464 349106005972 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 349106005973 Walker A motif; other site 349106005974 ATP binding site [chemical binding]; other site 349106005975 Walker B motif; other site 349106005976 arginine finger; other site 349106005977 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 349106005978 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 349106005979 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 349106005980 E-class dimer interface [polypeptide binding]; other site 349106005981 P-class dimer interface [polypeptide binding]; other site 349106005982 active site 349106005983 Cu2+ binding site [ion binding]; other site 349106005984 Zn2+ binding site [ion binding]; other site 349106005985 recombinase A; Provisional; Region: recA; PRK09354 349106005986 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 349106005987 hexamer interface [polypeptide binding]; other site 349106005988 Walker A motif; other site 349106005989 ATP binding site [chemical binding]; other site 349106005990 Walker B motif; other site 349106005991 RecX family; Region: RecX; cl00936 349106005992 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 349106005993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106005994 Coenzyme A binding pocket [chemical binding]; other site 349106005995 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 349106005996 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 349106005997 Permutation of conserved domain; other site 349106005998 active site 349106005999 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 349106006000 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 349106006001 Intracellular septation protein A; Region: IspA; cl01098 349106006002 YCII-related domain; Region: YCII; cl00999 349106006003 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 349106006004 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; cl16911 349106006005 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006006 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 349106006007 putative ATP binding site [chemical binding]; other site 349106006008 putative substrate interface [chemical binding]; other site 349106006009 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 349106006010 active site 349106006011 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 349106006012 dimer interface [polypeptide binding]; other site 349106006013 ssDNA binding site [nucleotide binding]; other site 349106006014 tetramer (dimer of dimers) interface [polypeptide binding]; other site 349106006015 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 349106006016 putative substrate translocation pore; other site 349106006017 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 349106006018 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 349106006019 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006020 Walker A/P-loop; other site 349106006021 ATP binding site [chemical binding]; other site 349106006022 Q-loop/lid; other site 349106006023 ABC transporter signature motif; other site 349106006024 Walker B; other site 349106006025 D-loop; other site 349106006026 H-loop/switch region; other site 349106006027 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 349106006028 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 349106006029 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 349106006030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006031 Protein of unknown function (DUF503); Region: DUF503; cl00669 349106006032 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; cl12031 349106006033 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 349106006034 substrate binding pocket [chemical binding]; other site 349106006035 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 349106006036 dimer interface [polypeptide binding]; other site 349106006037 FMN binding site [chemical binding]; other site 349106006038 Domain of unknown function (DUF368); Region: DUF368; cl00893 349106006039 Uncharacterized conserved protein [Function unknown]; Region: COG2966 349106006040 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 349106006041 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 349106006042 glutathione reductase; Validated; Region: PRK06116 349106006043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106006044 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 349106006045 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 349106006046 SmpB-tmRNA interface; other site 349106006047 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 349106006048 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 349106006049 active site 349106006050 (T/H)XGH motif; other site 349106006051 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 349106006052 hypothetical protein; Provisional; Region: PRK01254 349106006053 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 349106006054 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 349106006055 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 349106006056 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 349106006057 dimerization domain [polypeptide binding]; other site 349106006058 dimer interface [polypeptide binding]; other site 349106006059 catalytic residues [active] 349106006060 homoserine dehydrogenase; Provisional; Region: PRK06349 349106006061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006062 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 349106006063 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 349106006064 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 349106006065 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 349106006066 dimer interface [polypeptide binding]; other site 349106006067 active site 349106006068 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 349106006069 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 349106006070 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 349106006071 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106006072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106006073 Probable transposase; Region: OrfB_IS605; pfam01385 349106006074 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106006075 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 349106006076 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006077 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 349106006078 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 349106006079 nucleotide binding region [chemical binding]; other site 349106006080 ATP-binding site [chemical binding]; other site 349106006081 SEC-C motif; Region: SEC-C; pfam02810 349106006082 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 349106006083 MutS domain I; Region: MutS_I; pfam01624 349106006084 MutS domain II; Region: MutS_II; pfam05188 349106006085 MutS family domain IV; Region: MutS_IV; pfam05190 349106006086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006087 Walker A/P-loop; other site 349106006088 ATP binding site [chemical binding]; other site 349106006089 Q-loop/lid; other site 349106006090 ABC transporter signature motif; other site 349106006091 Walker B; other site 349106006092 D-loop; other site 349106006093 H-loop/switch region; other site 349106006094 Ferredoxin [Energy production and conversion]; Region: COG1146 349106006095 4Fe-4S binding domain; Region: Fer4; cl02805 349106006096 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 349106006097 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 349106006098 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 349106006099 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 349106006100 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 349106006101 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 349106006102 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 349106006103 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 349106006104 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 349106006105 dimerization interface [polypeptide binding]; other site 349106006106 substrate binding site [chemical binding]; other site 349106006107 active site 349106006108 calcium binding site [ion binding]; other site 349106006109 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 349106006110 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 349106006111 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 349106006112 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 349106006113 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 349106006114 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 349106006115 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006116 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 349106006117 CoenzymeA binding site [chemical binding]; other site 349106006118 subunit interaction site [polypeptide binding]; other site 349106006119 PHB binding site; other site 349106006120 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 349106006121 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 349106006122 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 349106006123 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 349106006124 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 349106006125 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 349106006126 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 349106006127 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 349106006128 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 349106006129 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 349106006130 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 349106006131 DNA binding site [nucleotide binding] 349106006132 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 349106006133 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; cl04593 349106006134 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 349106006135 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; cl04593 349106006136 RPB11 interaction site [polypeptide binding]; other site 349106006137 RPB12 interaction site [polypeptide binding]; other site 349106006138 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 349106006139 RPB3 interaction site [polypeptide binding]; other site 349106006140 RPB1 interaction site [polypeptide binding]; other site 349106006141 RPB11 interaction site [polypeptide binding]; other site 349106006142 RPB10 interaction site [polypeptide binding]; other site 349106006143 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 349106006144 peripheral dimer interface [polypeptide binding]; other site 349106006145 core dimer interface [polypeptide binding]; other site 349106006146 L10 interface [polypeptide binding]; other site 349106006147 L11 interface [polypeptide binding]; other site 349106006148 putative EF-Tu interaction site [polypeptide binding]; other site 349106006149 putative EF-G interaction site [polypeptide binding]; other site 349106006150 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 349106006151 23S rRNA interface [nucleotide binding]; other site 349106006152 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 349106006153 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 349106006154 mRNA/rRNA interface [nucleotide binding]; other site 349106006155 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 349106006156 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 349106006157 23S rRNA interface [nucleotide binding]; other site 349106006158 L7/L12 interface [polypeptide binding]; other site 349106006159 putative thiostrepton binding site; other site 349106006160 L25 interface [polypeptide binding]; other site 349106006161 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 349106006162 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 349106006163 putative homodimer interface [polypeptide binding]; other site 349106006164 KOW motif; Region: KOW; cl00354 349106006165 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 349106006166 elongation factor Tu; Reviewed; Region: PRK00049 349106006167 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 349106006168 G1 box; other site 349106006169 GEF interaction site [polypeptide binding]; other site 349106006170 GTP/Mg2+ binding site [chemical binding]; other site 349106006171 Switch I region; other site 349106006172 G2 box; other site 349106006173 G3 box; other site 349106006174 Switch II region; other site 349106006175 G4 box; other site 349106006176 G5 box; other site 349106006177 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 349106006178 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 349106006179 Antibiotic Binding Site [chemical binding]; other site 349106006180 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 349106006181 phosphopeptide binding site; other site 349106006182 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 349106006183 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 349106006184 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 349106006185 G1 box; other site 349106006186 putative GEF interaction site [polypeptide binding]; other site 349106006187 GTP/Mg2+ binding site [chemical binding]; other site 349106006188 Switch I region; other site 349106006189 G2 box; other site 349106006190 G3 box; other site 349106006191 Switch II region; other site 349106006192 G4 box; other site 349106006193 G5 box; other site 349106006194 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 349106006195 OsmC-like protein; Region: OsmC; cl00767 349106006196 DNA polymerase I; Provisional; Region: PRK05755 349106006197 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 349106006198 active site 349106006199 metal binding site 1 [ion binding]; metal-binding site 349106006200 putative 5' ssDNA interaction site; other site 349106006201 metal binding site 3; metal-binding site 349106006202 metal binding site 2 [ion binding]; metal-binding site 349106006203 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 349106006204 putative DNA binding site [nucleotide binding]; other site 349106006205 putative metal binding site [ion binding]; other site 349106006206 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 349106006207 active site 349106006208 catalytic site [active] 349106006209 substrate binding site [chemical binding]; other site 349106006210 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 349106006211 active site 349106006212 DNA binding site [nucleotide binding] 349106006213 catalytic site [active] 349106006214 Transposase, Mutator family; Region: Transposase_mut; pfam00872 349106006215 MULE transposase domain; Region: MULE; pfam10551 349106006216 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 349106006217 putative heme binding pocket [chemical binding]; other site 349106006218 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 349106006219 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 349106006220 Di-iron ligands [ion binding]; other site 349106006221 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 349106006222 ferroxidase diiron center [ion binding]; other site 349106006223 ferrochelatase; Reviewed; Region: hemH; PRK00035 349106006224 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 349106006225 C-terminal domain interface [polypeptide binding]; other site 349106006226 active site 349106006227 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 349106006228 active site 349106006229 N-terminal domain interface [polypeptide binding]; other site 349106006230 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; cl12031 349106006231 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 349106006232 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 349106006233 S-adenosylmethionine binding site [chemical binding]; other site 349106006234 Sel1 repeat; Region: Sel1; cl02723 349106006235 Sel1 repeat; Region: Sel1; cl02723 349106006236 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 349106006237 Rubredoxin; Region: Rubredoxin; pfam00301 349106006238 iron binding site [ion binding]; other site 349106006239 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 349106006240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006241 isovaleryl-CoA dehydrogenase; Region: PLN02519 349106006242 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 349106006243 substrate binding site [chemical binding]; other site 349106006244 FAD binding site [chemical binding]; other site 349106006245 catalytic base [active] 349106006246 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 349106006247 active site 349106006248 catalytic residues [active] 349106006249 metal binding site [ion binding]; metal-binding site 349106006250 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 349106006251 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106006252 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106006253 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 349106006254 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 349106006255 carboxyltransferase (CT) interaction site; other site 349106006256 biotinylation site [posttranslational modification]; other site 349106006257 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 349106006258 enoyl-CoA hydratase; Provisional; Region: PRK05995 349106006259 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 349106006260 substrate binding site [chemical binding]; other site 349106006261 oxyanion hole (OAH) forming residues; other site 349106006262 trimer interface [polypeptide binding]; other site 349106006263 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 349106006264 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349106006265 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 349106006266 AMP-binding domain protein; Validated; Region: PRK08315 349106006267 AMP-binding enzyme; Region: AMP-binding; cl15778 349106006268 AMP-binding enzyme; Region: AMP-binding; cl15778 349106006269 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 349106006270 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 349106006271 dimerization interface [polypeptide binding]; other site 349106006272 domain crossover interface; other site 349106006273 redox-dependent activation switch; other site 349106006274 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 349106006275 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; cl12031 349106006276 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 349106006277 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106006278 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 349106006279 dimer interface [polypeptide binding]; other site 349106006280 conserved gate region; other site 349106006281 putative PBP binding loops; other site 349106006282 ABC-ATPase subunit interface; other site 349106006283 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 349106006284 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 349106006285 dimer interface [polypeptide binding]; other site 349106006286 conserved gate region; other site 349106006287 putative PBP binding loops; other site 349106006288 ABC-ATPase subunit interface; other site 349106006289 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 349106006290 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106006291 substrate binding pocket [chemical binding]; other site 349106006292 membrane-bound complex binding site; other site 349106006293 hinge residues; other site 349106006294 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106006295 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 349106006296 substrate binding pocket [chemical binding]; other site 349106006297 membrane-bound complex binding site; other site 349106006298 hinge residues; other site 349106006299 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 349106006300 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 349106006301 substrate binding pocket [chemical binding]; other site 349106006302 membrane-bound complex binding site; other site 349106006303 hinge residues; other site 349106006304 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 349106006305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006306 Walker A/P-loop; other site 349106006307 ATP binding site [chemical binding]; other site 349106006308 Q-loop/lid; other site 349106006309 ABC transporter signature motif; other site 349106006310 Walker B; other site 349106006311 D-loop; other site 349106006312 H-loop/switch region; other site 349106006313 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 349106006314 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 349106006315 putative catalytic cysteine [active] 349106006316 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 349106006317 oligoendopeptidase F; Region: pepF; TIGR00181 349106006318 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 349106006319 active site 349106006320 Zn binding site [ion binding]; other site 349106006321 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 349106006322 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 349106006323 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 349106006324 dimer interface [polypeptide binding]; other site 349106006325 active site 349106006326 glycine-pyridoxal phosphate binding site [chemical binding]; other site 349106006327 folate binding site [chemical binding]; other site 349106006328 UTRA domain; Region: UTRA; cl01230 349106006329 Protein of unknown function, DUF482; Region: DUF482; pfam04339 349106006330 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106006331 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 349106006332 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 349106006333 Ion channel; Region: Ion_trans_2; cl11596 349106006334 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 349106006335 pseudouridine synthase; Region: TIGR00093 349106006336 active site 349106006337 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 349106006338 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 349106006339 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 349106006340 protein binding site [polypeptide binding]; other site 349106006341 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 349106006342 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 349106006343 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 349106006344 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 349106006345 dimer interface [polypeptide binding]; other site 349106006346 phosphorylation site [posttranslational modification] 349106006347 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 349106006348 ATP binding site [chemical binding]; other site 349106006349 Mg2+ binding site [ion binding]; other site 349106006350 G-X-G motif; other site 349106006351 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 349106006352 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 349106006353 active site 349106006354 phosphorylation site [posttranslational modification] 349106006355 intermolecular recognition site; other site 349106006356 dimerization interface [polypeptide binding]; other site 349106006357 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 349106006358 DNA binding site [nucleotide binding] 349106006359 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 349106006360 putative active site [active] 349106006361 dimerization interface [polypeptide binding]; other site 349106006362 putative tRNAtyr binding site [nucleotide binding]; other site 349106006363 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 349106006364 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 349106006365 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 349106006366 catalytic triad [active] 349106006367 dimer interface [polypeptide binding]; other site 349106006368 conserved cis-peptide bond; other site 349106006369 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 349106006370 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 349106006371 dimer interface [polypeptide binding]; other site 349106006372 active site 349106006373 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 349106006374 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 349106006375 substrate binding site [chemical binding]; other site 349106006376 oxyanion hole (OAH) forming residues; other site 349106006377 trimer interface [polypeptide binding]; other site 349106006378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006379 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349106006380 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 349106006381 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 349106006382 substrate binding pocket [chemical binding]; other site 349106006383 chain length determination region; other site 349106006384 substrate-Mg2+ binding site; other site 349106006385 catalytic residues [active] 349106006386 aspartate-rich region 1; other site 349106006387 active site lid residues [active] 349106006388 aspartate-rich region 2; other site 349106006389 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 349106006390 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 349106006391 binding surface 349106006392 TPR motif; other site 349106006393 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 349106006394 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 349106006395 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 349106006396 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 349106006397 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106006398 active site 349106006399 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 349106006400 5S rRNA interface [nucleotide binding]; other site 349106006401 CTC domain interface [polypeptide binding]; other site 349106006402 L16 interface [polypeptide binding]; other site 349106006403 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 349106006404 putative active site [active] 349106006405 catalytic residue [active] 349106006406 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 349106006407 tetramerization interface [polypeptide binding]; other site 349106006408 active site 349106006409 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 349106006410 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349106006411 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 349106006412 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 349106006413 active site 349106006414 FMN binding site [chemical binding]; other site 349106006415 2,4-decadienoyl-CoA binding site; other site 349106006416 catalytic residue [active] 349106006417 4Fe-4S cluster binding site [ion binding]; other site 349106006418 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 349106006419 acyl-CoA synthetase; Validated; Region: PRK08162 349106006420 AMP-binding enzyme; Region: AMP-binding; cl15778 349106006421 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106006422 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 349106006423 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106006424 catalytic residue [active] 349106006425 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349106006426 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349106006427 heme binding site [chemical binding]; other site 349106006428 ferroxidase pore; other site 349106006429 ferroxidase diiron center [ion binding]; other site 349106006430 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 349106006431 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 349106006432 heme binding site [chemical binding]; other site 349106006433 ferroxidase pore; other site 349106006434 ferroxidase diiron center [ion binding]; other site 349106006435 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 349106006436 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 349106006437 catalytic residues [active] 349106006438 hinge region; other site 349106006439 alpha helical domain; other site 349106006440 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 349106006441 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 349106006442 S-adenosylmethionine binding site [chemical binding]; other site 349106006443 phosphoglycolate phosphatase; Provisional; Region: PRK13222 349106006444 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 349106006445 motif II; other site 349106006446 short chain dehydrogenase; Provisional; Region: PRK08703 349106006447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006448 NAD(P) binding site [chemical binding]; other site 349106006449 active site 349106006450 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 349106006451 osmolarity response regulator; Provisional; Region: ompR; PRK09468 349106006452 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 349106006453 active site 349106006454 phosphorylation site [posttranslational modification] 349106006455 intermolecular recognition site; other site 349106006456 dimerization interface [polypeptide binding]; other site 349106006457 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 349106006458 DNA binding site [nucleotide binding] 349106006459 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 349106006460 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 349106006461 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 includes...; Region: RuvC_resolvase; cl00243 349106006462 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 349106006463 RNA binding site [nucleotide binding]; other site 349106006464 Uncharacterized conserved protein [Function unknown]; Region: COG3268 349106006465 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 349106006466 dihydrodipicolinate synthase; Region: dapA; TIGR00674 349106006467 dimer interface [polypeptide binding]; other site 349106006468 active site 349106006469 catalytic residue [active] 349106006470 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 349106006471 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 349106006472 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 349106006473 ATP binding site [chemical binding]; other site 349106006474 active site 349106006475 substrate binding site [chemical binding]; other site 349106006476 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 349106006477 Protein of unknown function (DUF615); Region: DUF615; cl01147 349106006478 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 349106006479 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 349106006480 Pantoate-beta-alanine ligase; Region: PanC; cd00560 349106006481 pantoate--beta-alanine ligase; Region: panC; TIGR00018 349106006482 active site 349106006483 ATP-binding site [chemical binding]; other site 349106006484 pantoate-binding site; other site 349106006485 HXXH motif; other site 349106006486 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 349106006487 oligomerization interface [polypeptide binding]; other site 349106006488 active site 349106006489 metal binding site [ion binding]; metal-binding site 349106006490 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 349106006491 catalytic center binding site [active] 349106006492 ATP binding site [chemical binding]; other site 349106006493 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 349106006494 poly(A) polymerase; Region: pcnB; TIGR01942 349106006495 active site 349106006496 NTP binding site [chemical binding]; other site 349106006497 metal binding triad [ion binding]; metal-binding site 349106006498 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 349106006499 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 349106006500 Rhomboid family; Region: Rhomboid; cl11446 349106006501 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 349106006502 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 349106006503 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 349106006504 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 349106006505 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 349106006506 active site 349106006507 dimer interface [polypeptide binding]; other site 349106006508 motif 1; other site 349106006509 motif 2; other site 349106006510 motif 3; other site 349106006511 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 349106006512 anticodon binding site; other site 349106006513 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 349106006514 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 349106006515 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 349106006516 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 349106006517 peroxiredoxin; Region: AhpC; TIGR03137 349106006518 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 349106006519 dimer interface [polypeptide binding]; other site 349106006520 decamer (pentamer of dimers) interface [polypeptide binding]; other site 349106006521 catalytic triad [active] 349106006522 peroxidatic and resolving cysteines [active] 349106006523 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106006524 Helix-turn-helix domains; Region: HTH; cl00088 349106006525 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 349106006526 dimerization interface [polypeptide binding]; other site 349106006527 Protein of unknown function DUF45; Region: DUF45; cl00636 349106006528 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 349106006529 Imelysin; Region: Peptidase_M75; cl09159 349106006530 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 349106006531 Imelysin; Region: Peptidase_M75; cl09159 349106006532 putative outer membrane lipoprotein; Provisional; Region: PRK10510 349106006533 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 349106006534 ligand binding site [chemical binding]; other site 349106006535 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 349106006536 putative acyl-acceptor binding pocket; other site 349106006537 septum formation inhibitor; Reviewed; Region: minC; PRK00339 349106006538 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 349106006539 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 349106006540 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 349106006541 Switch I; other site 349106006542 Switch II; other site 349106006543 Septum formation topological specificity factor MinE; Region: MinE; cl00538 349106006544 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 349106006545 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 349106006546 putative binding surface; other site 349106006547 active site 349106006548 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 349106006549 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 349106006550 putative binding surface; other site 349106006551 active site 349106006552 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 349106006553 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 349106006554 ATP binding site [chemical binding]; other site 349106006555 Mg2+ binding site [ion binding]; other site 349106006556 G-X-G motif; other site 349106006557 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 349106006558 Response regulator receiver domain; Region: Response_reg; pfam00072 349106006559 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 349106006560 active site 349106006561 phosphorylation site [posttranslational modification] 349106006562 intermolecular recognition site; other site 349106006563 dimerization interface [polypeptide binding]; other site 349106006564 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 349106006565 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 349106006566 dimer interface [polypeptide binding]; other site 349106006567 putative CheW interface [polypeptide binding]; other site 349106006568 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 349106006569 Response regulator receiver domain; Region: Response_reg; pfam00072 349106006570 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 349106006571 active site 349106006572 phosphorylation site [posttranslational modification] 349106006573 intermolecular recognition site; other site 349106006574 dimerization interface [polypeptide binding]; other site 349106006575 Response regulator receiver domain; Region: Response_reg; pfam00072 349106006576 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 349106006577 active site 349106006578 phosphorylation site [posttranslational modification] 349106006579 intermolecular recognition site; other site 349106006580 dimerization interface [polypeptide binding]; other site 349106006581 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 349106006582 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 349106006583 active site 349106006584 phosphorylation site [posttranslational modification] 349106006585 intermolecular recognition site; other site 349106006586 dimerization interface [polypeptide binding]; other site 349106006587 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 349106006588 DNA binding site [nucleotide binding] 349106006589 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 349106006590 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 349106006591 dimerization interface [polypeptide binding]; other site 349106006592 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 349106006593 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 349106006594 ATP binding site [chemical binding]; other site 349106006595 G-X-G motif; other site 349106006596 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 349106006597 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 349106006598 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006599 Walker A/P-loop; other site 349106006600 ATP binding site [chemical binding]; other site 349106006601 Q-loop/lid; other site 349106006602 ABC transporter signature motif; other site 349106006603 Walker B; other site 349106006604 D-loop; other site 349106006605 H-loop/switch region; other site 349106006606 CcmB protein; Region: CcmB; cl01016 349106006607 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 349106006608 Heme exporter protein D (CcmD); Region: CcmD; cl11475 349106006609 CcmE; Region: CcmE; cl00994 349106006610 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 349106006611 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 protein; Region: CSP_CDS; cd04458 349106006612 DNA-binding site [nucleotide binding]; DNA binding site 349106006613 RNA-binding motif; other site 349106006614 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 349106006615 Ligand Binding Site [chemical binding]; other site 349106006616 Protein of unknown function (DUF454); Region: DUF454; cl01063 349106006617 ornithine cyclodeaminase; Validated; Region: PRK08618 349106006618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006619 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 349106006620 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 349106006621 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; cl11420 349106006622 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 349106006623 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 349106006624 HIGH motif; other site 349106006625 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 349106006626 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 349106006627 active site 349106006628 KMSKS motif; other site 349106006629 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 349106006630 tRNA binding surface [nucleotide binding]; other site 349106006631 anticodon binding site; other site 349106006632 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 349106006633 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 349106006634 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 349106006635 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 349106006636 phosphoserine phosphatase SerB; Region: serB; TIGR00338 349106006637 viral phosphatase superfamily protein; Provisional; Region: PHA03398 349106006638 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 349106006639 motif II; other site 349106006640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006641 biotin synthase; Region: bioB; TIGR00433 349106006642 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 349106006643 FeS/SAM binding site; other site 349106006644 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 349106006645 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 349106006646 amidase; Provisional; Region: PRK06170 349106006647 ribonuclease PH; Reviewed; Region: rph; PRK00173 349106006648 Ribonuclease PH; Region: RNase_PH_bact; cd11362 349106006649 hexamer interface [polypeptide binding]; other site 349106006650 active site 349106006651 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 349106006652 AMP-binding enzyme; Region: AMP-binding; cl15778 349106006653 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106006654 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 349106006655 AMP-binding enzyme; Region: AMP-binding; cl15778 349106006656 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106006657 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 349106006658 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 in DNA...; Region: TOP4c; cd00187 349106006659 CAP-like domain; other site 349106006660 active site 349106006661 primary dimer interface [polypeptide binding]; other site 349106006662 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 349106006663 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 349106006664 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 349106006665 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 349106006666 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 349106006667 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 349106006668 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 349106006669 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 349106006670 Protein of unknown function (DUF421); Region: DUF421; cl00990 349106006671 hypothetical protein; Provisional; Region: PRK13682 349106006672 Pseudomonas aeruginosa PA3087 and related proteins, metallophosphatase domain; Region: MPP_PA3087; cd07413 349106006673 active site 349106006674 metal binding site [ion binding]; metal-binding site 349106006675 AIR carboxylase; Region: AIRC; cl00310 349106006676 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 349106006677 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106006678 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 349106006679 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 attaches...; Region: class_II_aaRS-like_core; cl00268 349106006680 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 349106006681 motif 1; other site 349106006682 dimer interface [polypeptide binding]; other site 349106006683 active site 349106006684 motif 2; other site 349106006685 motif 3; other site 349106006686 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 349106006687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006688 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 349106006689 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 349106006690 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 349106006691 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 349106006692 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 349106006693 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 349106006694 dimer interface [polypeptide binding]; other site 349106006695 motif 1; other site 349106006696 active site 349106006697 motif 2; other site 349106006698 motif 3; other site 349106006699 PspC domain; Region: PspC; cl00864 349106006700 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 349106006701 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 349106006702 active site 349106006703 nucleotide binding site [chemical binding]; other site 349106006704 HIGH motif; other site 349106006705 KMSKS motif; other site 349106006706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006707 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 349106006708 Peptidase family M48; Region: Peptidase_M48; cl12018 349106006709 Protein of unknown function (DUF962); Region: DUF962; cl01879 349106006710 YceI-like domain; Region: YceI; cl01001 349106006711 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 349106006712 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 349106006713 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 349106006714 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106006715 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 349106006716 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 349106006717 active site 349106006718 HIGH motif; other site 349106006719 dimer interface [polypeptide binding]; other site 349106006720 KMSKS motif; other site 349106006721 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 349106006722 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 349106006723 carboxyltransferase (CT) interaction site; other site 349106006724 biotinylation site [posttranslational modification]; other site 349106006725 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 349106006726 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 349106006727 ATP-grasp domain; Region: ATP-grasp_4; cl03087 349106006728 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 349106006729 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 349106006730 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 349106006731 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 349106006732 LamB/YcsF family; Region: LamB_YcsF; cl00664 349106006733 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 349106006734 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 349106006735 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 349106006736 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 349106006737 carboxyltransferase (CT) interaction site; other site 349106006738 biotinylation site [posttranslational modification]; other site 349106006739 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106006740 Probable transposase; Region: OrfB_IS605; pfam01385 349106006741 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106006742 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 349106006743 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 349106006744 thioredoxin 2; Provisional; Region: PRK10996 349106006745 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 349106006746 catalytic residues [active] 349106006747 high affinity sulphate transporter 1; Region: sulP; TIGR00815 349106006748 Sulfate transporter family; Region: Sulfate_transp; cl15842 349106006749 Sulfate transporter family; Region: Sulfate_transp; cl15842 349106006750 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 349106006751 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 349106006752 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 349106006753 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 349106006754 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 349106006755 catalytic residue [active] 349106006756 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 349106006757 catalytic residues [active] 349106006758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106006759 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 349106006760 Protein of unknown function (DUF465); Region: DUF465; cl01070 349106006761 ribonuclease R; Region: RNase_R; TIGR02063 349106006762 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 349106006763 RNB domain; Region: RNB; pfam00773 349106006764 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 play an important...; Region: S1_RNase_R; cd04471 349106006765 RNA binding site [nucleotide binding]; other site 349106006766 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 349106006767 putative catalytic site [active] 349106006768 putative metal binding site [ion binding]; other site 349106006769 putative phosphate binding site [ion binding]; other site 349106006770 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 349106006771 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 349106006772 active site 349106006773 Zn binding site [ion binding]; other site 349106006774 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 349106006775 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 349106006776 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106006777 Walker A/P-loop; other site 349106006778 ATP binding site [chemical binding]; other site 349106006779 Q-loop/lid; other site 349106006780 ABC transporter signature motif; other site 349106006781 Walker B; other site 349106006782 D-loop; other site 349106006783 H-loop/switch region; other site 349106006784 ABC transporter; Region: ABC_tran_2; pfam12848 349106006785 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 349106006786 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106006787 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 349106006788 aromatic arch; other site 349106006789 DCoH dimer interaction site [polypeptide binding]; other site 349106006790 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 349106006791 DCoH tetramer interaction site [polypeptide binding]; other site 349106006792 substrate binding site [chemical binding]; other site 349106006793 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 349106006794 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 349106006795 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 349106006796 Transporter associated domain; Region: CorC_HlyC; cl08393 349106006797 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 349106006798 nucleophile elbow; other site 349106006799 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 349106006800 Fibronectin type III-like domain; Region: Fn3-like; cl15273 349106006801 N-acetylglutamate synthase; Validated; Region: PRK05279 349106006802 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 349106006803 putative feedback inhibition sensing region; other site 349106006804 putative nucleotide binding site [chemical binding]; other site 349106006805 putative substrate binding site [chemical binding]; other site 349106006806 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 349106006807 Coenzyme A binding pocket [chemical binding]; other site 349106006808 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 349106006809 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 349106006810 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 349106006811 Conserved TM helix; Region: TM_helix; pfam05552 349106006812 Conserved TM helix; Region: TM_helix; pfam05552 349106006813 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 349106006814 classical (c) SDRs; Region: SDR_c; cd05233 349106006815 NAD(P) binding site [chemical binding]; other site 349106006816 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 349106006817 putative acyl-acceptor binding pocket; other site 349106006818 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 349106006819 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 349106006820 ATP binding site [chemical binding]; other site 349106006821 Mg2+ binding site [ion binding]; other site 349106006822 G-X-G motif; other site 349106006823 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 349106006824 anchoring element; other site 349106006825 dimer interface [polypeptide binding]; other site 349106006826 ATP binding site [chemical binding]; other site 349106006827 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 349106006828 active site 349106006829 metal binding site [ion binding]; metal-binding site 349106006830 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 349106006831 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 349106006832 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 349106006833 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 349106006834 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 349106006835 putative active site [active] 349106006836 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 349106006837 active site 349106006838 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 349106006839 active site 349106006840 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 349106006841 active site 349106006842 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 349106006843 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 349106006844 domain interfaces; other site 349106006845 active site 349106006846 argininosuccinate lyase; Provisional; Region: PRK00855 349106006847 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 349106006848 active sites [active] 349106006849 tetramer interface [polypeptide binding]; other site 349106006850 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 349106006851 transcriptional regulator PhoU; Provisional; Region: PRK11115 349106006852 PhoU domain; Region: PhoU; pfam01895 349106006853 PhoU domain; Region: PhoU; pfam01895 349106006854 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 349106006855 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 349106006856 Walker A/P-loop; other site 349106006857 ATP binding site [chemical binding]; other site 349106006858 Q-loop/lid; other site 349106006859 ABC transporter signature motif; other site 349106006860 Walker B; other site 349106006861 D-loop; other site 349106006862 H-loop/switch region; other site 349106006863 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 349106006864 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 349106006865 dimer interface [polypeptide binding]; other site 349106006866 conserved gate region; other site 349106006867 putative PBP binding loops; other site 349106006868 ABC-ATPase subunit interface; other site 349106006869 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 349106006870 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 349106006871 dimer interface [polypeptide binding]; other site 349106006872 conserved gate region; other site 349106006873 putative PBP binding loops; other site 349106006874 ABC-ATPase subunit interface; other site 349106006875 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 349106006876 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 349106006877 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 349106006878 ThiC-associated domain; Region: ThiC-associated; pfam13667 349106006879 ThiC family; Region: ThiC; cl08031 349106006880 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; cl09108 349106006881 catalytic residue [active] 349106006882 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 349106006883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 349106006884 Probable transposase; Region: OrfB_IS605; pfam01385 349106006885 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 349106006886 META domain; Region: META; cl01245 349106006887 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 349106006888 methionine synthase; Provisional; Region: PRK01207 349106006889 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 349106006890 substrate binding site [chemical binding]; other site 349106006891 THF binding site; other site 349106006892 zinc-binding site [ion binding]; other site 349106006893 Flavin Reductases; Region: FlaRed; cl00801 349106006894 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 349106006895 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 349106006896 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 349106006897 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 349106006898 glutaminase active site [active] 349106006899 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 349106006900 dimer interface [polypeptide binding]; other site 349106006901 active site 349106006902 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 349106006903 dimer interface [polypeptide binding]; other site 349106006904 active site 349106006905 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 349106006906 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 349106006907 Substrate binding site; other site 349106006908 Mg++ binding site; other site 349106006909 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 349106006910 active site 349106006911 substrate binding site [chemical binding]; other site 349106006912 CoA binding site [chemical binding]; other site 349106006913 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 349106006914 tetramer interfaces [polypeptide binding]; other site 349106006915 binuclear metal-binding site [ion binding]; other site 349106006916 thiamine monophosphate kinase; Provisional; Region: PRK05731 349106006917 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 349106006918 ATP binding site [chemical binding]; other site 349106006919 dimerization interface [polypeptide binding]; other site 349106006920 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 349106006921 putative RNA binding site [nucleotide binding]; other site 349106006922 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 349106006923 homopentamer interface [polypeptide binding]; other site 349106006924 active site 349106006925 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 349106006926 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 349106006927 substrate binding site [chemical binding]; other site 349106006928 glutamase interaction surface [polypeptide binding]; other site 349106006929 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 349106006930 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 349106006931 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 349106006932 Phosphotransferase enzyme family; Region: APH; pfam01636 349106006933 active site 349106006934 substrate binding site [chemical binding]; other site 349106006935 ATP binding site [chemical binding]; other site 349106006936 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 349106006937 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 349106006938 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 349106006939 putative active site [active] 349106006940 putative dimer interface [polypeptide binding]; other site 349106006941 hypothetical protein; Provisional; Region: PRK01752 349106006942 SEC-C motif; Region: SEC-C; pfam02810 349106006943 Neutral/alkaline non-lysosomal ceramidase; Region: Ceramidase_alk; cl04712 349106006944 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 349106006945 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 349106006946 active site 349106006947 substrate binding site [chemical binding]; other site 349106006948 Mg2+ binding site [ion binding]; other site 349106006949 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 349106006950 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 349106006951 putative active site [active] 349106006952 metal binding site [ion binding]; metal-binding site 349106006953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 349106006954 Helix-turn-helix domains; Region: HTH; cl00088 349106006955 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 349106006956 putative effector binding pocket; other site 349106006957 dimerization interface [polypeptide binding]; other site 349106006958 DoxX; Region: DoxX; cl00976 349106006959 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 349106006960 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 349106006961 Isochorismatase family; Region: Isochorismatase; pfam00857 349106006962 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 349106006963 catalytic triad [active] 349106006964 dimer interface [polypeptide binding]; other site 349106006965 conserved cis-peptide bond; other site 349106006966 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 349106006967 Cupin domain; Region: Cupin_2; cl09118 349106006968 Pirin-related protein [General function prediction only]; Region: COG1741 349106006969 Cupin domain; Region: Cupin_2; cl09118 349106006970 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 349106006971 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 349106006972 dimer interface [polypeptide binding]; other site 349106006973 FMN binding site [chemical binding]; other site 349106006974 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 349106006975 classical (c) SDRs; Region: SDR_c; cd05233 349106006976 NAD(P) binding site [chemical binding]; other site 349106006977 active site 349106006978 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 349106006979 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 349106006980 active site 349106006981 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 349106006982 catalytic residues [active] 349106006983 transcription termination factor Rho; Provisional; Region: rho; PRK09376 349106006984 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 349106006985 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 349106006986 RNA binding site [nucleotide binding]; other site 349106006987 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 349106006988 multimer interface [polypeptide binding]; other site 349106006989 Walker A motif; other site 349106006990 ATP binding site [chemical binding]; other site 349106006991 Walker B motif; other site 349106006992 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 349106006993 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 349106006994 IHF - DNA interface [nucleotide binding]; other site 349106006995 IHF dimer interface [polypeptide binding]; other site 349106006996 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 349106006997 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 349106006998 putative tRNA-binding site [nucleotide binding]; other site 349106006999 B3/4 domain; Region: B3_4; cl11458 349106007000 tRNA synthetase B5 domain; Region: B5; cl08394 349106007001 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 349106007002 dimer interface [polypeptide binding]; other site 349106007003 motif 1; other site 349106007004 motif 3; other site 349106007005 motif 2; other site 349106007006 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 349106007007 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 349106007008 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 349106007009 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 349106007010 dimer interface [polypeptide binding]; other site 349106007011 motif 1; other site 349106007012 active site 349106007013 motif 2; other site 349106007014 motif 3; other site 349106007015 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 349106007016 23S rRNA binding site [nucleotide binding]; other site 349106007017 L21 binding site [polypeptide binding]; other site 349106007018 L13 binding site [polypeptide binding]; other site 349106007019 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 349106007020 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 349106007021 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 349106007022 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 349106007023 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349106007024 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 349106007025 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 349106007026 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 349106007027 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 349106007028 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 349106007029 Family description; Region: UvrD_C_2; cl15862 349106007030 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 349106007031 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 349106007032 FMN binding site [chemical binding]; other site 349106007033 active site 349106007034 catalytic residues [active] 349106007035 substrate binding site [chemical binding]; other site 349106007036 MAPEG family; Region: MAPEG; cl09190 349106007037 OsmC-like protein; Region: OsmC; cl00767 349106007038 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 349106007039 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 349106007040 active site 349106007041 catalytic triad [active] 349106007042 oxyanion hole [active] 349106007043 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106007044 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 349106007045 putative active site [active] 349106007046 Ap4A binding site [chemical binding]; other site 349106007047 nudix motif; other site 349106007048 putative metal binding site [ion binding]; other site 349106007049 NRDE protein; Region: NRDE; cl01315 349106007050 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 349106007051 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 349106007052 dimerization interface [polypeptide binding]; other site 349106007053 active site 349106007054 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 349106007055 folate binding site [chemical binding]; other site 349106007056 NADP+ binding site [chemical binding]; other site 349106007057 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 349106007058 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 349106007059 putative active site [active] 349106007060 catalytic site [active] 349106007061 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 349106007062 putative active site [active] 349106007063 catalytic site [active] 349106007064 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 349106007065 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 349106007066 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 349106007067 active site 349106007068 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 349106007069 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 349106007070 putative substrate translocation pore; other site 349106007071 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; cl11420 349106007072 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 349106007073 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 349106007074 putative active site [active] 349106007075 catalytic triad [active] 349106007076 putative dimer interface [polypeptide binding]; other site 349106007077 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 349106007078 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 349106007079 ssDNA binding site; other site 349106007080 generic binding surface II; other site 349106007081 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 349106007082 ATP binding site [chemical binding]; other site 349106007083 putative Mg++ binding site [ion binding]; other site 349106007084 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 349106007085 nucleotide binding region [chemical binding]; other site 349106007086 ATP-binding site [chemical binding]; other site 349106007087 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; cl00284 349106007088 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 349106007089 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; cl00284 349106007090 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; cl00284 349106007091 EamA-like transporter family; Region: EamA; cl01037 349106007092 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 349106007093 EamA-like transporter family; Region: EamA; cl01037 349106007094 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 349106007095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106007096 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 349106007097 N-acetyltransferase; Region: Acetyltransf_2; cl00949 349106007098 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 349106007099 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 349106007100 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 ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 349106007101 putative ADP-ribose binding site [chemical binding]; other site 349106007102 putative active site [active] 349106007103 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 349106007104 FAD binding domain; Region: FAD_binding_4; pfam01565 349106007105 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106007106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 349106007107 MOSC domain; Region: MOSC; pfam03473 349106007108 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349106007109 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 349106007110 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 349106007111 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 349106007112 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 349106007113 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 349106007114 Potassium binding sites [ion binding]; other site 349106007115 Cesium cation binding sites [ion binding]; other site 349106007116 Cytochrome c; Region: Cytochrom_C; cl11414 349106007117 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 349106007118 Cytochrome c; Region: Cytochrom_C; cl11414 349106007119 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 349106007120 Cytochrome c; Region: Cytochrom_C; cl11414 349106007121 Mg chelatase-related protein; Region: TIGR00368 349106007122 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 349106007123 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 349106007124 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 349106007125 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 349106007126 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 349106007127 FeS/SAM binding site; other site 349106007128 HemN C-terminal domain; Region: HemN_C; pfam06969 349106007129 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 349106007130 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 349106007131 dimer interface [polypeptide binding]; other site 349106007132 PYR/PP interface [polypeptide binding]; other site 349106007133 TPP binding site [chemical binding]; other site 349106007134 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 349106007135 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 349106007136 TPP-binding site [chemical binding]; other site 349106007137 dimer interface [polypeptide binding]; other site 349106007138 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 349106007139 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 349106007140 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 349106007141 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 349106007142 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106007143 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106007144 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106007145 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 349106007146 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 349106007147 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 349106007148 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 349106007149 catalytic residue [active] 349106007150 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 349106007151 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 349106007152 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 349106007153 dimer interface [polypeptide binding]; other site 349106007154 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 349106007155 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 349106007156 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 349106007157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 349106007158 TIGR01777 family protein; Region: yfcH 349106007159 NAD(P) binding site [chemical binding]; other site 349106007160 active site 349106007161 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 349106007162 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 349106007163 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 349106007164 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 349106007165 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 349106007166 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, cyanobacteria; Region: Thr-synth_2; cd01560 349106007167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 349106007168 catalytic residue [active] 349106007169 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 349106007170 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 349106007171 putative NAD(P) binding site [chemical binding]; other site 349106007172 catalytic Zn binding site [ion binding]; other site 349106007173 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 349106007174 16S rRNA methyltransferase B; Provisional; Region: PRK10901 349106007175 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 349106007176 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; cl16911 349106007177 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 349106007178 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 349106007179 putative active site [active] 349106007180 substrate binding site [chemical binding]; other site 349106007181 putative cosubstrate binding site; other site 349106007182 catalytic site [active] 349106007183 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 349106007184 substrate binding site [chemical binding]; other site 349106007185 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 349106007186 Lumazine binding domain; Region: Lum_binding; pfam00677 349106007187 Lumazine binding domain; Region: Lum_binding; pfam00677 349106007188 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 349106007189 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 349106007190 catalytic motif [active] 349106007191 Zn binding site [ion binding]; other site 349106007192 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; cl00161 349106007193 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 349106007194 ATP cone domain; Region: ATP-cone; pfam03477 349106007195 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 349106007196 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 349106007197 trmE is a tRNA modification GTPase; Region: trmE; cd04164 349106007198 G1 box; other site 349106007199 GTP/Mg2+ binding site [chemical binding]; other site 349106007200 Switch I region; other site 349106007201 G2 box; other site 349106007202 Switch II region; other site 349106007203 G3 box; other site 349106007204 G4 box; other site 349106007205 G5 box; other site 349106007206 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 349106007207 membrane protein insertase; Provisional; Region: PRK01318 349106007208 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 349106007209 Haemolytic domain; Region: Haemolytic; cl00506 349106007210 Ribonuclease P; Region: Ribonuclease_P; cl00457