-- dump date 20140619_095532 -- class Genbank::misc_feature -- table misc_feature_note -- id note 177416000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 177416000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 177416000003 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 177416000004 Walker A motif; other site 177416000005 ATP binding site [chemical binding]; other site 177416000006 Walker B motif; other site 177416000007 arginine finger; other site 177416000008 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 177416000009 DnaA box-binding interface [nucleotide binding]; other site 177416000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 177416000011 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 177416000012 putative DNA binding surface [nucleotide binding]; other site 177416000013 dimer interface [polypeptide binding]; other site 177416000014 beta-clamp/clamp loader binding surface; other site 177416000015 beta-clamp/translesion DNA polymerase binding surface; other site 177416000016 Homeodomain-like domain; Region: HTH_23; cl17451 177416000017 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000018 metabolite-proton symporter; Region: 2A0106; TIGR00883 177416000019 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 177416000020 putative substrate translocation pore; other site 177416000021 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 177416000022 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 177416000023 dimer interface [polypeptide binding]; other site 177416000024 anticodon binding site; other site 177416000025 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 177416000026 homodimer interface [polypeptide binding]; other site 177416000027 motif 1; other site 177416000028 active site 177416000029 motif 2; other site 177416000030 GAD domain; Region: GAD; pfam02938 177416000031 motif 3; other site 177416000032 adenylosuccinate lyase; Provisional; Region: PRK07492 177416000033 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 177416000034 tetramer interface [polypeptide binding]; other site 177416000035 active site 177416000036 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 177416000037 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177416000038 HlyD family secretion protein; Region: HlyD_3; pfam13437 177416000039 Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]; Region: GatC; COG0721 177416000040 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 177416000041 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 177416000042 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 177416000043 GatB domain; Region: GatB_Yqey; smart00845 177416000044 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 177416000045 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 177416000046 putative substrate translocation pore; other site 177416000047 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 177416000048 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 177416000049 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme MccE; Region: PLPDE_III_MccE_like; cd06841 177416000050 dimer interface [polypeptide binding]; other site 177416000051 active site 177416000052 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177416000053 catalytic residues [active] 177416000054 substrate binding site [chemical binding]; other site 177416000055 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 177416000056 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416000057 putative substrate translocation pore; other site 177416000058 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 177416000059 IucA / IucC family; Region: IucA_IucC; pfam04183 177416000060 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 177416000061 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 177416000062 metal binding site 2 [ion binding]; metal-binding site 177416000063 putative DNA binding helix; other site 177416000064 metal binding site 1 [ion binding]; metal-binding site 177416000065 dimer interface [polypeptide binding]; other site 177416000066 structural Zn2+ binding site [ion binding]; other site 177416000067 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 177416000068 NADH dehydrogenase subunit B; Validated; Region: PRK06411 177416000069 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 177416000070 NADH dehydrogenase subunit D; Validated; Region: PRK06075 177416000071 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 177416000072 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 177416000073 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 177416000074 putative dimer interface [polypeptide binding]; other site 177416000075 [2Fe-2S] cluster binding site [ion binding]; other site 177416000076 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 177416000077 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 177416000078 SLBB domain; Region: SLBB; pfam10531 177416000079 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 177416000080 NADH dehydrogenase subunit G; Validated; Region: PRK09129 177416000081 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 177416000082 catalytic loop [active] 177416000083 iron binding site [ion binding]; other site 177416000084 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 177416000085 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 177416000086 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 177416000087 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 177416000088 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 177416000089 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 177416000090 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 177416000091 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 177416000092 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 177416000093 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177416000094 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 177416000095 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177416000096 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 177416000097 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 177416000098 Membrane fusogenic activity; Region: BMFP; cl01115 177416000099 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 177416000100 substrate binding site [chemical binding]; other site 177416000101 active site 177416000102 hypothetical protein; Provisional; Region: PRK14641 177416000103 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 177416000104 putative oligomer interface [polypeptide binding]; other site 177416000105 putative RNA binding site [nucleotide binding]; other site 177416000106 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 177416000107 NusA N-terminal domain; Region: NusA_N; pfam08529 177416000108 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 177416000109 RNA binding site [nucleotide binding]; other site 177416000110 homodimer interface [polypeptide binding]; other site 177416000111 NusA-like KH domain; Region: KH_5; pfam13184 177416000112 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 177416000113 G-X-X-G motif; other site 177416000114 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 177416000115 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 177416000116 translation initiation factor IF-2; Validated; Region: infB; PRK05306 177416000117 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 177416000118 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 177416000119 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 177416000120 G1 box; other site 177416000121 putative GEF interaction site [polypeptide binding]; other site 177416000122 GTP/Mg2+ binding site [chemical binding]; other site 177416000123 Switch I region; other site 177416000124 G2 box; other site 177416000125 G3 box; other site 177416000126 Switch II region; other site 177416000127 G4 box; other site 177416000128 G5 box; other site 177416000129 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 177416000130 Translation-initiation factor 2; Region: IF-2; pfam11987 177416000131 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 177416000132 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 177416000133 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 177416000134 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 177416000135 dimer interface [polypeptide binding]; other site 177416000136 motif 1; other site 177416000137 active site 177416000138 motif 2; other site 177416000139 motif 3; other site 177416000140 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 177416000141 anticodon binding site; other site 177416000142 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 177416000143 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 177416000144 putative substrate translocation pore; other site 177416000145 Predicted ATPase [General function prediction only]; Region: COG1485 177416000146 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 177416000147 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 177416000148 RNA binding surface [nucleotide binding]; other site 177416000149 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177416000150 active site 177416000151 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 177416000152 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416000153 putative substrate translocation pore; other site 177416000154 ATP synthase I chain; Region: ATP_synt_I; cl09170 177416000155 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 177416000156 F0F1 ATP synthase subunit C; Provisional; Region: PRK13464 177416000157 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 177416000158 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 177416000159 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 177416000160 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 177416000161 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177416000162 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 177416000163 beta subunit interaction interface [polypeptide binding]; other site 177416000164 Walker A motif; other site 177416000165 ATP binding site [chemical binding]; other site 177416000166 Walker B motif; other site 177416000167 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177416000168 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 177416000169 core domain interface [polypeptide binding]; other site 177416000170 delta subunit interface [polypeptide binding]; other site 177416000171 epsilon subunit interface [polypeptide binding]; other site 177416000172 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 177416000173 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 177416000174 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 177416000175 alpha subunit interaction interface [polypeptide binding]; other site 177416000176 Walker A motif; other site 177416000177 ATP binding site [chemical binding]; other site 177416000178 Walker B motif; other site 177416000179 inhibitor binding site; inhibition site 177416000180 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 177416000181 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13452 177416000182 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 177416000183 gamma subunit interface [polypeptide binding]; other site 177416000184 epsilon subunit interface [polypeptide binding]; other site 177416000185 LBP interface [polypeptide binding]; other site 177416000186 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 177416000187 GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18; Region: GH18_chitinase_D-like; cd02871 177416000188 putative active site [active] 177416000189 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 177416000190 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 177416000191 putative GSH binding site [chemical binding]; other site 177416000192 catalytic residues [active] 177416000193 superoxide dismutase; Provisional; Region: PRK10543 177416000194 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 177416000195 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 177416000196 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 177416000197 putative substrate translocation pore; other site 177416000198 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416000199 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 177416000200 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 177416000201 dimer interface [polypeptide binding]; other site 177416000202 active site 177416000203 citrylCoA binding site [chemical binding]; other site 177416000204 NADH binding [chemical binding]; other site 177416000205 cationic pore residues; other site 177416000206 oxalacetate/citrate binding site [chemical binding]; other site 177416000207 coenzyme A binding site [chemical binding]; other site 177416000208 catalytic triad [active] 177416000209 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 177416000210 Iron-sulfur protein interface; other site 177416000211 proximal quinone binding site [chemical binding]; other site 177416000212 SdhD (CybS) interface [polypeptide binding]; other site 177416000213 proximal heme binding site [chemical binding]; other site 177416000214 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 177416000215 SdhC subunit interface [polypeptide binding]; other site 177416000216 proximal heme binding site [chemical binding]; other site 177416000217 cardiolipin binding site; other site 177416000218 Iron-sulfur protein interface; other site 177416000219 proximal quinone binding site [chemical binding]; other site 177416000220 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 177416000221 L-aspartate oxidase; Provisional; Region: PRK06175 177416000222 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177416000223 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 177416000224 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 177416000225 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 177416000226 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 177416000227 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 177416000228 TPP-binding site [chemical binding]; other site 177416000229 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 177416000230 dimer interface [polypeptide binding]; other site 177416000231 PYR/PP interface [polypeptide binding]; other site 177416000232 TPP binding site [chemical binding]; other site 177416000233 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 177416000234 E3 interaction surface; other site 177416000235 lipoyl attachment site [posttranslational modification]; other site 177416000236 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 177416000237 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 177416000238 E3 interaction surface; other site 177416000239 lipoyl attachment site [posttranslational modification]; other site 177416000240 e3 binding domain; Region: E3_binding; pfam02817 177416000241 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 177416000242 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 177416000243 nucleotide binding site [chemical binding]; other site 177416000244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177416000245 active site 177416000246 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14320 177416000247 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 177416000248 active site 177416000249 substrate binding site [chemical binding]; other site 177416000250 metal binding site [ion binding]; metal-binding site 177416000251 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 177416000252 substrate binding site [chemical binding]; other site 177416000253 dimer interface [polypeptide binding]; other site 177416000254 catalytic triad [active] 177416000255 protein translocase, SecG subunit; Region: secG; TIGR00810 177416000256 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 177416000257 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 177416000258 HemN family oxidoreductase; Provisional; Region: PRK05660 177416000259 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 177416000260 FeS/SAM binding site; other site 177416000261 HemN C-terminal domain; Region: HemN_C; pfam06969 177416000262 GtrA-like protein; Region: GtrA; pfam04138 177416000263 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 177416000264 aconitate hydratase; Validated; Region: PRK09277 177416000265 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 177416000266 substrate binding site [chemical binding]; other site 177416000267 ligand binding site [chemical binding]; other site 177416000268 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 177416000269 substrate binding site [chemical binding]; other site 177416000270 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 177416000271 Walker A motif; other site 177416000272 ATP binding site [chemical binding]; other site 177416000273 Walker B motif; other site 177416000274 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 177416000275 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 177416000276 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 177416000277 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 177416000278 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 177416000279 putative NAD(P) binding site [chemical binding]; other site 177416000280 putative active site [active] 177416000281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 177416000282 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 177416000283 dimer interface [polypeptide binding]; other site 177416000284 phosphorylation site [posttranslational modification] 177416000285 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 177416000286 ATP binding site [chemical binding]; other site 177416000287 Mg2+ binding site [ion binding]; other site 177416000288 G-X-G motif; other site 177416000289 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416000290 Homeodomain-like domain; Region: HTH_23; cl17451 177416000291 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000292 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416000293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416000294 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416000295 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416000296 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 177416000297 dimer interface [polypeptide binding]; other site 177416000298 catalytic triad [active] 177416000299 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 177416000300 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 177416000301 putative substrate translocation pore; other site 177416000302 multidrug efflux protein; Reviewed; Region: PRK09579 177416000303 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 177416000304 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177416000305 HlyD family secretion protein; Region: HlyD_3; pfam13437 177416000306 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 177416000307 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13296 177416000308 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 177416000309 active site 177416000310 NTP binding site [chemical binding]; other site 177416000311 metal binding triad [ion binding]; metal-binding site 177416000312 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 177416000313 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 177416000314 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177416000315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416000316 Walker A/P-loop; other site 177416000317 ATP binding site [chemical binding]; other site 177416000318 Q-loop/lid; other site 177416000319 ABC transporter signature motif; other site 177416000320 Walker B; other site 177416000321 D-loop; other site 177416000322 H-loop/switch region; other site 177416000323 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 177416000324 DNA polymerase I; Provisional; Region: PRK05755 177416000325 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 177416000326 active site 177416000327 metal binding site 1 [ion binding]; metal-binding site 177416000328 putative 5' ssDNA interaction site; other site 177416000329 metal binding site 3; metal-binding site 177416000330 metal binding site 2 [ion binding]; metal-binding site 177416000331 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 177416000332 putative DNA binding site [nucleotide binding]; other site 177416000333 putative metal binding site [ion binding]; other site 177416000334 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 177416000335 active site 177416000336 catalytic site [active] 177416000337 substrate binding site [chemical binding]; other site 177416000338 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 177416000339 active site 177416000340 DNA binding site [nucleotide binding] 177416000341 catalytic site [active] 177416000342 pantothenate kinase; Reviewed; Region: PRK13324 177416000343 phosphopentomutase; Provisional; Region: PRK05362 177416000344 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 177416000345 intersubunit interface [polypeptide binding]; other site 177416000346 active site 177416000347 catalytic residue [active] 177416000348 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 177416000349 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 177416000350 Nucleoside recognition; Region: Gate; pfam07670 177416000351 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 177416000352 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 177416000353 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 177416000354 Nucleoside recognition; Region: Gate; pfam07670 177416000355 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 177416000356 thymidylate kinase; Validated; Region: tmk; PRK00698 177416000357 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 177416000358 TMP-binding site; other site 177416000359 ATP-binding site [chemical binding]; other site 177416000360 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 177416000361 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 177416000362 G1 box; other site 177416000363 putative GEF interaction site [polypeptide binding]; other site 177416000364 GTP/Mg2+ binding site [chemical binding]; other site 177416000365 Switch I region; other site 177416000366 G2 box; other site 177416000367 G3 box; other site 177416000368 Switch II region; other site 177416000369 G4 box; other site 177416000370 G5 box; other site 177416000371 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 177416000372 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 177416000373 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 177416000374 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 177416000375 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 177416000376 P loop; other site 177416000377 GTP binding site [chemical binding]; other site 177416000378 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 177416000379 Part of AAA domain; Region: AAA_19; pfam13245 177416000380 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 177416000381 Similar to OPPA_HAEIN (P71370) Periplasmic oligopeptide-binding protein (precursor) from Haemophilus influenzae (541 aa). FASTA: opt: 924 Z-score: 1112.1 E(): 4.7e-54 Smith-Waterman score: 924; 34.490identity in 461 aa overlap oligopeptide transporter, subunit A, ABC transporter, periplasmic protein 177416000382 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 177416000383 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177416000384 Walker A/P-loop; other site 177416000385 ATP binding site [chemical binding]; other site 177416000386 Q-loop/lid; other site 177416000387 ABC transporter signature motif; other site 177416000388 Walker B; other site 177416000389 D-loop; other site 177416000390 H-loop/switch region; other site 177416000391 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177416000392 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 177416000393 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 177416000394 Walker A/P-loop; other site 177416000395 ATP binding site [chemical binding]; other site 177416000396 Q-loop/lid; other site 177416000397 ABC transporter signature motif; other site 177416000398 Walker B; other site 177416000399 D-loop; other site 177416000400 H-loop/switch region; other site 177416000401 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 177416000402 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 177416000403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416000404 putative substrate translocation pore; other site 177416000405 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 177416000406 putative substrate translocation pore; other site 177416000407 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416000408 glycerol kinase; Provisional; Region: glpK; PRK00047 177416000409 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 177416000410 N- and C-terminal domain interface [polypeptide binding]; other site 177416000411 active site 177416000412 MgATP binding site [chemical binding]; other site 177416000413 catalytic site [active] 177416000414 metal binding site [ion binding]; metal-binding site 177416000415 glycerol binding site [chemical binding]; other site 177416000416 homotetramer interface [polypeptide binding]; other site 177416000417 homodimer interface [polypeptide binding]; other site 177416000418 FBP binding site [chemical binding]; other site 177416000419 protein IIAGlc interface [polypeptide binding]; other site 177416000420 Homeodomain-like domain; Region: HTH_23; cl17451 177416000421 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000422 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 177416000423 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 177416000424 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 177416000425 amphipathic channel; other site 177416000426 Asn-Pro-Ala signature motifs; other site 177416000427 AAA domain; Region: AAA_30; pfam13604 177416000428 AAA domain; Region: AAA_11; pfam13086 177416000429 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 177416000430 elongation factor Tu; Reviewed; Region: PRK00049 177416000431 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 177416000432 G1 box; other site 177416000433 GEF interaction site [polypeptide binding]; other site 177416000434 GTP/Mg2+ binding site [chemical binding]; other site 177416000435 Switch I region; other site 177416000436 G2 box; other site 177416000437 G3 box; other site 177416000438 Switch II region; other site 177416000439 G4 box; other site 177416000440 G5 box; other site 177416000441 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 177416000442 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 177416000443 Antibiotic Binding Site [chemical binding]; other site 177416000444 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 177416000445 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 177416000446 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 177416000447 putative homodimer interface [polypeptide binding]; other site 177416000448 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 177416000449 heterodimer interface [polypeptide binding]; other site 177416000450 homodimer interface [polypeptide binding]; other site 177416000451 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 177416000452 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 177416000453 23S rRNA interface [nucleotide binding]; other site 177416000454 L7/L12 interface [polypeptide binding]; other site 177416000455 putative thiostrepton binding site; other site 177416000456 L25 interface [polypeptide binding]; other site 177416000457 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 177416000458 mRNA/rRNA interface [nucleotide binding]; other site 177416000459 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 177416000460 23S rRNA interface [nucleotide binding]; other site 177416000461 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 177416000462 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 177416000463 core dimer interface [polypeptide binding]; other site 177416000464 peripheral dimer interface [polypeptide binding]; other site 177416000465 L10 interface [polypeptide binding]; other site 177416000466 L11 interface [polypeptide binding]; other site 177416000467 putative EF-Tu interaction site [polypeptide binding]; other site 177416000468 putative EF-G interaction site [polypeptide binding]; other site 177416000469 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 177416000470 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 177416000471 RPB12 interaction site [polypeptide binding]; other site 177416000472 RPB1 interaction site [polypeptide binding]; other site 177416000473 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 177416000474 RPB10 interaction site [polypeptide binding]; other site 177416000475 RPB11 interaction site [polypeptide binding]; other site 177416000476 RPB3 interaction site [polypeptide binding]; other site 177416000477 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 177416000478 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 177416000479 beta and beta' interface [polypeptide binding]; other site 177416000480 beta' and sigma factor interface [polypeptide binding]; other site 177416000481 Zn-binding [ion binding]; other site 177416000482 active site region [active] 177416000483 catalytic site [active] 177416000484 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 177416000485 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 177416000486 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 177416000487 cleft; other site 177416000488 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 177416000489 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 177416000490 G-loop; other site 177416000491 DNA binding site [nucleotide binding] 177416000492 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 177416000493 UGMP family protein; Validated; Region: PRK09604 177416000494 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 177416000495 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 177416000496 Di-iron ligands [ion binding]; other site 177416000497 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 177416000498 S-adenosylmethionine synthetase; Validated; Region: PRK05250 177416000499 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 177416000500 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 177416000501 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 177416000502 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 177416000503 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14591 177416000504 RimM N-terminal domain; Region: RimM; pfam01782 177416000505 PRC-barrel domain; Region: PRC; pfam05239 177416000506 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 177416000507 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 177416000508 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 177416000509 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 177416000510 active site 177416000511 Int/Topo IB signature motif; other site 177416000512 oxidoreductase, 2OG-Fe(II) oxygenase family protein; Region: PLN03002 177416000513 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 177416000514 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 177416000515 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 177416000516 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177416000517 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 177416000518 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 177416000519 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 177416000520 putative active site [active] 177416000521 Ap4A binding site [chemical binding]; other site 177416000522 nudix motif; other site 177416000523 putative metal binding site [ion binding]; other site 177416000524 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 177416000525 active site 177416000526 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 177416000527 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 177416000528 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 177416000529 amidase catalytic site [active] 177416000530 Zn binding residues [ion binding]; other site 177416000531 substrate binding site [chemical binding]; other site 177416000532 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 177416000533 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 177416000534 ATP binding site [chemical binding]; other site 177416000535 Mg2+ binding site [ion binding]; other site 177416000536 G-X-G motif; other site 177416000537 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 177416000538 anchoring element; other site 177416000539 dimer interface [polypeptide binding]; other site 177416000540 ATP binding site [chemical binding]; other site 177416000541 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 177416000542 active site 177416000543 metal binding site [ion binding]; metal-binding site 177416000544 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 177416000545 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 177416000546 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 177416000547 putative substrate translocation pore; other site 177416000548 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 177416000549 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 177416000550 Trp docking motif [polypeptide binding]; other site 177416000551 active site 177416000552 Tetratricopeptide repeat; Region: TPR_21; pfam09976 177416000553 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 177416000554 TPR motif; other site 177416000555 binding surface 177416000556 glutamyl-tRNA reductase; Provisional; Region: PRK13940 177416000557 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 177416000558 tRNA; other site 177416000559 putative tRNA binding site [nucleotide binding]; other site 177416000560 putative NADP binding site [chemical binding]; other site 177416000561 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 177416000562 peptide chain release factor 1; Validated; Region: prfA; PRK00591 177416000563 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 177416000564 This domain is found in peptide chain release factors; Region: PCRF; smart00937 177416000565 RF-1 domain; Region: RF-1; pfam00472 177416000566 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 177416000567 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 177416000568 S-adenosylmethionine binding site [chemical binding]; other site 177416000569 Homeodomain-like domain; Region: HTH_23; cl17451 177416000570 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000571 YGGT family; Region: YGGT; pfam02325 177416000572 YGGT family; Region: YGGT; pfam02325 177416000573 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 177416000574 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177416000575 Walker A/P-loop; other site 177416000576 ATP binding site [chemical binding]; other site 177416000577 Q-loop/lid; other site 177416000578 ABC transporter signature motif; other site 177416000579 Walker B; other site 177416000580 D-loop; other site 177416000581 H-loop/switch region; other site 177416000582 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 177416000583 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177416000584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177416000585 Coenzyme A binding pocket [chemical binding]; other site 177416000586 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 177416000587 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 177416000588 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416000589 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 177416000590 putative acyl-acceptor binding pocket; other site 177416000591 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 177416000592 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 177416000593 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 177416000594 RNA binding site [nucleotide binding]; other site 177416000595 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 177416000596 RNA binding site [nucleotide binding]; other site 177416000597 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 177416000598 RNA binding site [nucleotide binding]; other site 177416000599 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 177416000600 RNA binding site [nucleotide binding]; other site 177416000601 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 177416000602 RNA binding site [nucleotide binding]; other site 177416000603 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 177416000604 RNA binding site [nucleotide binding]; other site 177416000605 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 177416000606 nucleoside/Zn binding site; other site 177416000607 dimer interface [polypeptide binding]; other site 177416000608 catalytic motif [active] 177416000609 D-alanyl-alanine synthetase A; Provisional; Region: PRK14569 177416000610 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 177416000611 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416000612 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 177416000613 Cell division protein FtsQ; Region: FtsQ; pfam03799 177416000614 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 177416000615 Cell division protein FtsA; Region: FtsA; smart00842 177416000616 Cell division protein FtsA; Region: FtsA; pfam14450 177416000617 cell division protein FtsZ; Validated; Region: PRK09330 177416000618 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 177416000619 nucleotide binding site [chemical binding]; other site 177416000620 SulA interaction site; other site 177416000621 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 177416000622 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 177416000623 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14957 177416000624 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 177416000625 Walker A motif; other site 177416000626 ATP binding site [chemical binding]; other site 177416000627 Walker B motif; other site 177416000628 DNA polymerase III subunit delta'; Validated; Region: PRK08485 177416000629 arginine finger; other site 177416000630 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 177416000631 This domain is found in peptide chain release factors; Region: PCRF; smart00937 177416000632 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 177416000633 RF-1 domain; Region: RF-1; pfam00472 177416000634 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 177416000635 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 177416000636 dimer interface [polypeptide binding]; other site 177416000637 putative anticodon binding site; other site 177416000638 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 177416000639 motif 1; other site 177416000640 active site 177416000641 motif 2; other site 177416000642 motif 3; other site 177416000643 hypothetical protein; Provisional; Region: PRK05208 177416000644 CAAX protease self-immunity; Region: Abi; pfam02517 177416000645 Eps15 homology domain; Region: EH; smart00027 177416000646 Glutaminase; Region: Glutaminase; cl00907 177416000647 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 177416000648 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 177416000649 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 177416000650 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 177416000651 glutamine synthetase; Region: PLN02284 177416000652 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 177416000653 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 177416000654 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 177416000655 Processivity clamp loader gamma complex DNA pol III C-term; Region: DNA_pol3_delt_C; pfam14840 177416000656 Lipocalin-like domain; Region: Lipocalin_2; cl19222 177416000657 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416000658 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416000659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416000660 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416000661 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 177416000662 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 177416000663 purine monophosphate binding site [chemical binding]; other site 177416000664 dimer interface [polypeptide binding]; other site 177416000665 putative catalytic residues [active] 177416000666 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 177416000667 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 177416000668 GDP-binding site [chemical binding]; other site 177416000669 ACT binding site; other site 177416000670 IMP binding site; other site 177416000671 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177416000672 active site 177416000673 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 177416000674 ABC-ATPase subunit interface; other site 177416000675 dimer interface [polypeptide binding]; other site 177416000676 putative PBP binding regions; other site 177416000677 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 177416000678 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416000679 Walker A/P-loop; other site 177416000680 ATP binding site [chemical binding]; other site 177416000681 Q-loop/lid; other site 177416000682 ABC transporter signature motif; other site 177416000683 Walker B; other site 177416000684 D-loop; other site 177416000685 H-loop/switch region; other site 177416000686 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 177416000687 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 177416000688 intersubunit interface [polypeptide binding]; other site 177416000689 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 177416000690 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 177416000691 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 177416000692 primosome assembly protein PriA; Validated; Region: PRK05580 177416000693 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 177416000694 ATP binding site [chemical binding]; other site 177416000695 putative Mg++ binding site [ion binding]; other site 177416000696 helicase superfamily c-terminal domain; Region: HELICc; smart00490 177416000697 Homeodomain-like domain; Region: HTH_23; cl17451 177416000698 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000699 Phosphate transporter family; Region: PHO4; pfam01384 177416000700 Phosphoesterase family; Region: Phosphoesterase; pfam04185 177416000701 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 177416000702 LamB/YcsF family protein; Provisional; Region: PRK05406 177416000703 Homeodomain-like domain; Region: HTH_23; cl17451 177416000704 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000705 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 177416000706 catalytic site [active] 177416000707 putative active site [active] 177416000708 putative substrate binding site [chemical binding]; other site 177416000709 dimer interface [polypeptide binding]; other site 177416000710 elongation factor P; Validated; Region: PRK00529 177416000711 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 177416000712 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 177416000713 RNA binding site [nucleotide binding]; other site 177416000714 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 177416000715 RNA binding site [nucleotide binding]; other site 177416000716 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 177416000717 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 177416000718 putative acyl-acceptor binding pocket; other site 177416000719 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 177416000720 putative acyl-acceptor binding pocket; other site 177416000721 membrane protein insertase; Provisional; Region: PRK01318 177416000722 YidC periplasmic domain; Region: YidC_periplas; pfam14849 177416000723 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 177416000724 hypothetical protein; Provisional; Region: PRK14375 177416000725 Ribonuclease P; Region: Ribonuclease_P; pfam00825 177416000726 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 177416000727 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 177416000728 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 177416000729 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 177416000730 NAD(P) binding pocket [chemical binding]; other site 177416000731 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 177416000732 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177416000733 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416000734 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177416000735 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 177416000736 putative SAM binding site [chemical binding]; other site 177416000737 putative homodimer interface [polypeptide binding]; other site 177416000738 HAD-hyrolase-like; Region: Hydrolase_like; cl19142 177416000739 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 177416000740 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 177416000741 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 177416000742 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 177416000743 PLD-like domain; Region: PLDc_2; pfam13091 177416000744 putative homodimer interface [polypeptide binding]; other site 177416000745 putative active site [active] 177416000746 catalytic site [active] 177416000747 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 177416000748 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 177416000749 ATP binding site [chemical binding]; other site 177416000750 putative Mg++ binding site [ion binding]; other site 177416000751 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 177416000752 nucleotide binding region [chemical binding]; other site 177416000753 ATP-binding site [chemical binding]; other site 177416000754 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 177416000755 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 177416000756 Ligand Binding Site [chemical binding]; other site 177416000757 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 177416000758 Ligand Binding Site [chemical binding]; other site 177416000759 Homeodomain-like domain; Region: HTH_23; cl17451 177416000760 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000761 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 177416000762 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 177416000763 G1 box; other site 177416000764 GTP/Mg2+ binding site [chemical binding]; other site 177416000765 Switch I region; other site 177416000766 G2 box; other site 177416000767 G3 box; other site 177416000768 Switch II region; other site 177416000769 G4 box; other site 177416000770 G5 box; other site 177416000771 Nucleoside recognition; Region: Gate; pfam07670 177416000772 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 177416000773 Nucleoside recognition; Region: Gate; pfam07670 177416000774 pyruvate phosphate dikinase; Provisional; Region: PRK09279 177416000775 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 177416000776 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 177416000777 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 177416000778 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 177416000779 homodimer interface [polypeptide binding]; other site 177416000780 substrate-cofactor binding pocket; other site 177416000781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416000782 catalytic residue [active] 177416000783 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 177416000784 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 177416000785 active site 177416000786 catalytic residues [active] 177416000787 metal binding site [ion binding]; metal-binding site 177416000788 Homeodomain-like domain; Region: HTH_23; cl17451 177416000789 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000790 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 177416000791 Exoribonuclease R [Transcription]; Region: VacB; COG0557 177416000792 RNB domain; Region: RNB; pfam00773 177416000793 Predicted esterase [General function prediction only]; Region: COG0400 177416000794 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 177416000795 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 177416000796 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 177416000797 domain interfaces; other site 177416000798 active site 177416000799 camphor resistance protein CrcB; Provisional; Region: PRK14226 177416000800 Zinc-finger domain; Region: zf-CHCC; cl01821 177416000801 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 177416000802 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 177416000803 dimer interface [polypeptide binding]; other site 177416000804 conserved gate region; other site 177416000805 putative PBP binding loops; other site 177416000806 ABC-ATPase subunit interface; other site 177416000807 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 177416000808 dimer interface [polypeptide binding]; other site 177416000809 conserved gate region; other site 177416000810 putative PBP binding loops; other site 177416000811 ABC-ATPase subunit interface; other site 177416000812 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 177416000813 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 177416000814 Walker A/P-loop; other site 177416000815 ATP binding site [chemical binding]; other site 177416000816 Q-loop/lid; other site 177416000817 ABC transporter signature motif; other site 177416000818 Walker B; other site 177416000819 D-loop; other site 177416000820 H-loop/switch region; other site 177416000821 C-terminal AAA-associated domain; Region: AAA_assoc_C; pfam09821 177416000822 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 177416000823 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 177416000824 TrkA-N domain; Region: TrkA_N; pfam02254 177416000825 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 177416000826 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 177416000827 trimer interface [polypeptide binding]; other site 177416000828 putative metal binding site [ion binding]; other site 177416000829 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 177416000830 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 177416000831 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 177416000832 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 177416000833 Homeodomain-like domain; Region: HTH_23; cl17451 177416000834 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416000835 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 177416000836 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 177416000837 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 177416000838 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 177416000839 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 177416000840 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416000841 putative substrate translocation pore; other site 177416000842 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 177416000843 The cupredoxin domain of Ubiquinol oxidase subunit II; Region: CuRO_UO_II; cd04212 177416000844 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 177416000845 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 177416000846 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 177416000847 D-pathway; other site 177416000848 Putative ubiquinol binding site [chemical binding]; other site 177416000849 Low-spin heme (heme b) binding site [chemical binding]; other site 177416000850 Putative water exit pathway; other site 177416000851 Binuclear center (heme o3/CuB) [ion binding]; other site 177416000852 K-pathway; other site 177416000853 Putative proton exit pathway; other site 177416000854 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 177416000855 Subunit I/III interface [polypeptide binding]; other site 177416000856 Subunit III/IV interface [polypeptide binding]; other site 177416000857 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 177416000858 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 177416000859 putative active site [active] 177416000860 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 177416000861 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 177416000862 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 177416000863 trimer interface [polypeptide binding]; other site 177416000864 active site 177416000865 UDP-GlcNAc binding site [chemical binding]; other site 177416000866 lipid binding site [chemical binding]; lipid-binding site 177416000867 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl18962 177416000868 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 177416000869 dimer interface [polypeptide binding]; other site 177416000870 pyridoxal binding site [chemical binding]; other site 177416000871 ATP binding site [chemical binding]; other site 177416000872 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 177416000873 MoxR-like ATPases [General function prediction only]; Region: COG0714 177416000874 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 177416000875 Walker A motif; other site 177416000876 ATP binding site [chemical binding]; other site 177416000877 Walker B motif; other site 177416000878 arginine finger; other site 177416000879 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 177416000880 Protein of unknown function DUF58; Region: DUF58; pfam01882 177416000881 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 177416000882 VWA BatA type: 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_BatA_type; cd01467 177416000883 metal ion-dependent adhesion site (MIDAS); other site 177416000884 hypothetical protein; Provisional; Region: PRK13685 177416000885 von Willebrand factor type A domain; Region: VWA_2; pfam13519 177416000886 metal ion-dependent adhesion site (MIDAS); other site 177416000887 Oxygen tolerance; Region: BatD; pfam13584 177416000888 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 177416000889 putative substrate binding pocket [chemical binding]; other site 177416000890 AC domain interface; other site 177416000891 catalytic triad [active] 177416000892 AB domain interface; other site 177416000893 interchain disulfide; other site 177416000894 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 177416000895 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 177416000896 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 177416000897 active site 177416000898 HIGH motif; other site 177416000899 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177416000900 KMSKS motif; other site 177416000901 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 177416000902 tRNA binding surface [nucleotide binding]; other site 177416000903 anticodon binding site; other site 177416000904 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 177416000905 1-deoxy-D-xylulose-5-phosphate synthase; Region: PLN02225 177416000906 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 177416000907 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 177416000908 active site 177416000909 substrate binding site [chemical binding]; other site 177416000910 FMN binding site [chemical binding]; other site 177416000911 putative catalytic residues [active] 177416000912 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 177416000913 dimer interface [polypeptide binding]; other site 177416000914 FMN binding site [chemical binding]; other site 177416000915 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_31; cd04690 177416000916 nudix motif; other site 177416000917 fumarate hydratase; Reviewed; Region: fumC; PRK00485 177416000918 Class II fumarases; Region: Fumarase_classII; cd01362 177416000919 active site 177416000920 tetramer interface [polypeptide binding]; other site 177416000921 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 177416000922 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 177416000923 active site 177416000924 HIGH motif; other site 177416000925 KMSKS motif; other site 177416000926 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416000927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416000928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416000929 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416000930 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 177416000931 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 177416000932 Amidinotransferase; Region: Amidinotransf; pfam02274 177416000933 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 177416000934 folate binding site [chemical binding]; other site 177416000935 NADP+ binding site [chemical binding]; other site 177416000936 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 177416000937 rRNA interaction site [nucleotide binding]; other site 177416000938 S8 interaction site; other site 177416000939 putative laminin-1 binding site; other site 177416000940 elongation factor Ts; Provisional; Region: tsf; PRK09377 177416000941 UBA/TS-N domain; Region: UBA; pfam00627 177416000942 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 177416000943 putative nucleotide binding site [chemical binding]; other site 177416000944 uridine monophosphate binding site [chemical binding]; other site 177416000945 homohexameric interface [polypeptide binding]; other site 177416000946 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 177416000947 hinge region; other site 177416000948 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 177416000949 active site 177416000950 dimer interface [polypeptide binding]; other site 177416000951 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 177416000952 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 177416000953 trimer interface [polypeptide binding]; other site 177416000954 active site 177416000955 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 177416000956 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 177416000957 S17 interaction site [polypeptide binding]; other site 177416000958 S8 interaction site; other site 177416000959 16S rRNA interaction site [nucleotide binding]; other site 177416000960 streptomycin interaction site [chemical binding]; other site 177416000961 23S rRNA interaction site [nucleotide binding]; other site 177416000962 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 177416000963 30S ribosomal protein S7; Validated; Region: PRK05302 177416000964 elongation factor G; Reviewed; Region: PRK00007 177416000965 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 177416000966 G1 box; other site 177416000967 putative GEF interaction site [polypeptide binding]; other site 177416000968 GTP/Mg2+ binding site [chemical binding]; other site 177416000969 Switch I region; other site 177416000970 G2 box; other site 177416000971 G3 box; other site 177416000972 Switch II region; other site 177416000973 G4 box; other site 177416000974 G5 box; other site 177416000975 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 177416000976 Elongation Factor G, domain II; Region: EFG_II; pfam14492 177416000977 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 177416000978 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 177416000979 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 177416000980 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 177416000981 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 177416000982 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 177416000983 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 177416000984 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 177416000985 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 177416000986 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 177416000987 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 177416000988 putative translocon binding site; other site 177416000989 protein-rRNA interface [nucleotide binding]; other site 177416000990 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 177416000991 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 177416000992 G-X-X-G motif; other site 177416000993 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 177416000994 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 177416000995 23S rRNA interface [nucleotide binding]; other site 177416000996 5S rRNA interface [nucleotide binding]; other site 177416000997 putative antibiotic binding site [chemical binding]; other site 177416000998 L25 interface [polypeptide binding]; other site 177416000999 L27 interface [polypeptide binding]; other site 177416001000 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 177416001001 23S rRNA interface [nucleotide binding]; other site 177416001002 putative translocon interaction site; other site 177416001003 signal recognition particle (SRP54) interaction site; other site 177416001004 L23 interface [polypeptide binding]; other site 177416001005 trigger factor interaction site; other site 177416001006 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 177416001007 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 177416001008 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 177416001009 RNA binding site [nucleotide binding]; other site 177416001010 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 177416001011 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 177416001012 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 177416001013 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 177416001014 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 177416001015 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 177416001016 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 177416001017 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 177416001018 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 177416001019 23S rRNA interface [nucleotide binding]; other site 177416001020 L21e interface [polypeptide binding]; other site 177416001021 5S rRNA interface [nucleotide binding]; other site 177416001022 L27 interface [polypeptide binding]; other site 177416001023 L5 interface [polypeptide binding]; other site 177416001024 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 177416001025 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 177416001026 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 177416001027 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 177416001028 23S rRNA binding site [nucleotide binding]; other site 177416001029 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 177416001030 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 177416001031 SecY translocase; Region: SecY; pfam00344 177416001032 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 177416001033 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 177416001034 30S ribosomal protein S11; Validated; Region: PRK05309 177416001035 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 177416001036 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 177416001037 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 177416001038 RNA binding surface [nucleotide binding]; other site 177416001039 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 177416001040 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 177416001041 alphaNTD homodimer interface [polypeptide binding]; other site 177416001042 alphaNTD - beta interaction site [polypeptide binding]; other site 177416001043 alphaNTD - beta' interaction site [polypeptide binding]; other site 177416001044 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 177416001045 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 177416001046 Homeodomain-like domain; Region: HTH_23; cl17451 177416001047 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001048 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; cl19952 177416001049 Homeodomain-like domain; Region: HTH_23; cl17451 177416001050 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001051 heat shock protein 90; Provisional; Region: PRK05218 177416001052 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 177416001053 ATP binding site [chemical binding]; other site 177416001054 Mg2+ binding site [ion binding]; other site 177416001055 G-X-G motif; other site 177416001056 Hsp90 protein; Region: HSP90; pfam00183 177416001057 Homeodomain-like domain; Region: HTH_23; cl17451 177416001058 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001059 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 177416001060 short chain dehydrogenase; Validated; Region: PRK06182 177416001061 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 177416001062 NADP binding site [chemical binding]; other site 177416001063 active site 177416001064 steroid binding site; other site 177416001065 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 177416001066 Homeodomain-like domain; Region: HTH_23; cl17451 177416001067 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001068 SnoaL-like domain; Region: SnoaL_2; pfam12680 177416001069 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 177416001070 ferredoxin-NADP reductase; Provisional; Region: PRK10926 177416001071 FAD binding pocket [chemical binding]; other site 177416001072 FAD binding motif [chemical binding]; other site 177416001073 phosphate binding motif [ion binding]; other site 177416001074 beta-alpha-beta structure motif; other site 177416001075 NAD binding pocket [chemical binding]; other site 177416001076 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 177416001077 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 177416001078 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 177416001079 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 177416001080 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 177416001081 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 177416001082 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 177416001083 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416001084 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 177416001085 Nucleoside diphosphate kinase; Region: NDK; pfam00334 177416001086 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 177416001087 active site 177416001088 multimer interface [polypeptide binding]; other site 177416001089 CTP synthetase; Validated; Region: pyrG; PRK05380 177416001090 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 177416001091 Catalytic site [active] 177416001092 active site 177416001093 UTP binding site [chemical binding]; other site 177416001094 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 177416001095 active site 177416001096 putative oxyanion hole; other site 177416001097 catalytic triad [active] 177416001098 Homeodomain-like domain; Region: HTH_23; cl17451 177416001099 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001100 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; cl19952 177416001101 glutamate dehydrogenase; Provisional; Region: PRK09414 177416001102 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 177416001103 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 177416001104 NAD(P) binding site [chemical binding]; other site 177416001105 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416001106 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416001107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416001108 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416001109 META domain; Region: META; cl01245 177416001110 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 177416001111 DNA binding residues [nucleotide binding] 177416001112 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 177416001113 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 177416001114 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional proteins, also containing a Nudix hydrolase domain; Region: NMNAT_Nudix; cd02168 177416001115 active site 177416001116 (T/H)XGH motif; other site 177416001117 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 177416001118 nudix motif; other site 177416001119 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 177416001120 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 177416001121 Substrate binding site; other site 177416001122 Mg++ binding site; other site 177416001123 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 177416001124 active site 177416001125 substrate binding site [chemical binding]; other site 177416001126 CoA binding site [chemical binding]; other site 177416001127 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 177416001128 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 177416001129 glutaminase active site [active] 177416001130 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 177416001131 dimer interface [polypeptide binding]; other site 177416001132 active site 177416001133 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 177416001134 dimer interface [polypeptide binding]; other site 177416001135 active site 177416001136 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 177416001137 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 177416001138 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 177416001139 DNA-binding site [nucleotide binding]; DNA binding site 177416001140 RNA-binding motif; other site 177416001141 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 177416001142 metal binding site [ion binding]; metal-binding site 177416001143 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 177416001144 active site 177416001145 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 177416001146 PLD-like domain; Region: PLDc_2; pfam13091 177416001147 putative homodimer interface [polypeptide binding]; other site 177416001148 putative active site [active] 177416001149 catalytic site [active] 177416001150 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 177416001151 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 177416001152 CAP-like domain; other site 177416001153 active site 177416001154 primary dimer interface [polypeptide binding]; other site 177416001155 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 177416001156 BNR repeat-like domain; Region: BNR_2; pfam13088 177416001157 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 177416001158 Asp-box motif; other site 177416001159 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177416001160 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 177416001161 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177416001162 catalytic residue [active] 177416001163 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 177416001164 Predicted membrane protein [Function unknown]; Region: COG4325 177416001165 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 177416001166 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 177416001167 active site 177416001168 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 177416001169 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 177416001170 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 177416001171 generic binding surface II; other site 177416001172 generic binding surface I; other site 177416001173 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 177416001174 active site 177416001175 catalytic residues [active] 177416001176 metal binding site [ion binding]; metal-binding site 177416001177 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 177416001178 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 177416001179 FtsX-like permease family; Region: FtsX; pfam02687 177416001180 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 177416001181 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 177416001182 Walker A/P-loop; other site 177416001183 ATP binding site [chemical binding]; other site 177416001184 Q-loop/lid; other site 177416001185 ABC transporter signature motif; other site 177416001186 Walker B; other site 177416001187 D-loop; other site 177416001188 H-loop/switch region; other site 177416001189 lysine decarboxylase LdcC; Provisional; Region: PRK15399 177416001190 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 177416001191 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 177416001192 homodimer interface [polypeptide binding]; other site 177416001193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416001194 catalytic residue [active] 177416001195 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 177416001196 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 177416001197 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 177416001198 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 177416001199 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 177416001200 lipoyl attachment site [posttranslational modification]; other site 177416001201 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 177416001202 tetramer interface [polypeptide binding]; other site 177416001203 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416001204 catalytic residue [active] 177416001205 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 177416001206 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416001207 catalytic residue [active] 177416001208 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 177416001209 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 177416001210 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 177416001211 NAD(P) binding pocket [chemical binding]; other site 177416001212 pullulanase, type I; Region: pulA_typeI; TIGR02104 177416001213 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 177416001214 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 177416001215 Ca binding site [ion binding]; other site 177416001216 active site 177416001217 catalytic site [active] 177416001218 glycogen branching enzyme; Provisional; Region: PRK12313 177416001219 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 177416001220 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 177416001221 active site 177416001222 catalytic site [active] 177416001223 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 177416001224 phosphoglucomutase; Region: PLN02307 177416001225 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 177416001226 substrate binding site [chemical binding]; other site 177416001227 dimer interface [polypeptide binding]; other site 177416001228 active site 177416001229 metal binding site [ion binding]; metal-binding site 177416001230 glycogen synthase; Provisional; Region: glgA; PRK00654 177416001231 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 177416001232 ADP-binding pocket [chemical binding]; other site 177416001233 homodimer interface [polypeptide binding]; other site 177416001234 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 177416001235 homodimer interface [polypeptide binding]; other site 177416001236 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 177416001237 active site pocket [active] 177416001238 4-alpha-glucanotransferase; Provisional; Region: PRK14508 177416001239 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 177416001240 dimer interface [polypeptide binding]; other site 177416001241 motif 1; other site 177416001242 active site 177416001243 motif 2; other site 177416001244 motif 3; other site 177416001245 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 177416001246 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177416001247 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416001248 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177416001249 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177416001250 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 177416001251 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416001252 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177416001253 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 177416001254 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 177416001255 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 177416001256 threonine synthase; Validated; Region: PRK09225 177416001257 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 177416001258 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416001259 catalytic residue [active] 177416001260 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 177416001261 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 177416001262 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 177416001263 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177416001264 catalytic residue [active] 177416001265 Amidinotransferase; Region: Amidinotransf; cl19186 177416001266 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 177416001267 putative active site; other site 177416001268 catalytic triad [active] 177416001269 putative dimer interface [polypeptide binding]; other site 177416001270 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 177416001271 putative active site [active] 177416001272 putative metal binding site [ion binding]; other site 177416001273 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177416001274 active site 177416001275 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 177416001276 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 177416001277 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416001278 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177416001279 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 177416001280 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 177416001281 Homeodomain-like domain; Region: HTH_23; cl17451 177416001282 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001283 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 177416001284 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416001285 putative substrate translocation pore; other site 177416001286 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 177416001287 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416001288 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 177416001289 putative substrate translocation pore; other site 177416001290 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 177416001291 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 177416001292 putative substrate translocation pore; other site 177416001293 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 177416001294 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 177416001295 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 177416001296 active site 177416001297 HIGH motif; other site 177416001298 KMSKS motif; other site 177416001299 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 177416001300 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK09344 177416001301 active site 177416001302 metal-binding site [ion binding] 177416001303 nucleotide-binding site [chemical binding]; other site 177416001304 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 177416001305 Mg++ binding site [ion binding]; other site 177416001306 putative catalytic motif [active] 177416001307 putative substrate binding site [chemical binding]; other site 177416001308 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 177416001309 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416001310 cell division protein FtsW; Region: ftsW; TIGR02614 177416001311 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 177416001312 putative active site [active] 177416001313 YdjC motif; other site 177416001314 Mg binding site [ion binding]; other site 177416001315 putative homodimer interface [polypeptide binding]; other site 177416001316 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 177416001317 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 177416001318 Ligand binding site; other site 177416001319 Putative Catalytic site; other site 177416001320 DXD motif; other site 177416001321 Endoplasmic reticulum-based factor for assembly of V-ATPase; Region: Vma12; pfam11712 177416001322 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 177416001323 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 177416001324 oxidative damage protection protein; Provisional; Region: PRK05408 177416001325 DsrC like protein; Region: DsrC; pfam04358 177416001326 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 177416001327 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177416001328 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 177416001329 dimer interface [polypeptide binding]; other site 177416001330 N-terminal domain interface [polypeptide binding]; other site 177416001331 putative inner membrane peptidase; Provisional; Region: PRK11778 177416001332 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 177416001333 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 177416001334 tandem repeat interface [polypeptide binding]; other site 177416001335 oligomer interface [polypeptide binding]; other site 177416001336 active site residues [active] 177416001337 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 177416001338 DNA polymerase III subunit delta'; Validated; Region: PRK08485 177416001339 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 177416001340 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 177416001341 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 177416001342 dimer interface [polypeptide binding]; other site 177416001343 active site 177416001344 Schiff base residues; other site 177416001345 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 177416001346 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 177416001347 active site 177416001348 homotetramer interface [polypeptide binding]; other site 177416001349 homodimer interface [polypeptide binding]; other site 177416001350 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 177416001351 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 177416001352 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 177416001353 active site 177416001354 HIGH motif; other site 177416001355 KMSK motif region; other site 177416001356 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177416001357 tRNA binding surface [nucleotide binding]; other site 177416001358 anticodon binding site; other site 177416001359 OstA-like protein; Region: OstA; cl00844 177416001360 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 177416001361 Organic solvent tolerance protein; Region: OstA_C; pfam04453 177416001362 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 177416001363 SurA N-terminal domain; Region: SurA_N; pfam09312 177416001364 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 177416001365 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 177416001366 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 177416001367 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 177416001368 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 177416001369 active site 177416001370 metal binding site [ion binding]; metal-binding site 177416001371 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 177416001372 trimer interface [polypeptide binding]; other site 177416001373 active site 177416001374 dimer interface [polypeptide binding]; other site 177416001375 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 177416001376 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 177416001377 carboxyltransferase (CT) interaction site; other site 177416001378 biotinylation site [posttranslational modification]; other site 177416001379 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 177416001380 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177416001381 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 177416001382 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 177416001383 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 177416001384 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 177416001385 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177416001386 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177416001387 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 177416001388 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 177416001389 motif 1; other site 177416001390 dimer interface [polypeptide binding]; other site 177416001391 active site 177416001392 motif 2; other site 177416001393 motif 3; other site 177416001394 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 177416001395 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 177416001396 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 177416001397 DHH family; Region: DHH; pfam01368 177416001398 DHHA1 domain; Region: DHHA1; pfam02272 177416001399 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 177416001400 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 177416001401 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 177416001402 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 177416001403 GTPase RsgA; Reviewed; Region: PRK00098 177416001404 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 177416001405 RNA binding site [nucleotide binding]; other site 177416001406 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 177416001407 GTPase/Zn-binding domain interface [polypeptide binding]; other site 177416001408 GTP/Mg2+ binding site [chemical binding]; other site 177416001409 G4 box; other site 177416001410 G5 box; other site 177416001411 G1 box; other site 177416001412 Switch I region; other site 177416001413 G2 box; other site 177416001414 G3 box; other site 177416001415 Switch II region; other site 177416001416 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 177416001417 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 177416001418 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 177416001419 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 177416001420 ATP binding site [chemical binding]; other site 177416001421 Mg2+ binding site [ion binding]; other site 177416001422 G-X-G motif; other site 177416001423 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 177416001424 ATP binding site [chemical binding]; other site 177416001425 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 177416001426 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 177416001427 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416001428 putative substrate translocation pore; other site 177416001429 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 177416001430 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 177416001431 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177416001432 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 177416001433 PLD-like domain; Region: PLDc_2; pfam13091 177416001434 putative active site [active] 177416001435 catalytic site [active] 177416001436 Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_2; cd09107 177416001437 PLD-like domain; Region: PLDc_2; pfam13091 177416001438 putative active site [active] 177416001439 putative catalytic site [active] 177416001440 phosphoglycolate phosphatase; Provisional; Region: PRK13222 177416001441 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 177416001442 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 177416001443 motif II; other site 177416001444 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177416001445 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416001446 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 177416001447 putative effector binding pocket; other site 177416001448 dimerization interface [polypeptide binding]; other site 177416001449 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 177416001450 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 177416001451 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 177416001452 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 177416001453 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 177416001454 CoA binding domain; Region: CoA_binding; smart00881 177416001455 CoA-ligase; Region: Ligase_CoA; pfam00549 177416001456 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 177416001457 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 177416001458 CoA-ligase; Region: Ligase_CoA; pfam00549 177416001459 TIGR03546 family protein; Region: TIGR03546 177416001460 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 177416001461 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177416001462 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 177416001463 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 177416001464 FMN binding site [chemical binding]; other site 177416001465 active site 177416001466 catalytic residues [active] 177416001467 substrate binding site [chemical binding]; other site 177416001468 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl18951 177416001469 putative active site pocket [active] 177416001470 dimerization interface [polypeptide binding]; other site 177416001471 putative catalytic residue [active] 177416001472 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 177416001473 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 177416001474 ATP binding site [chemical binding]; other site 177416001475 Mg2+ binding site [ion binding]; other site 177416001476 G-X-G motif; other site 177416001477 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 177416001478 anchoring element; other site 177416001479 dimer interface [polypeptide binding]; other site 177416001480 ATP binding site [chemical binding]; other site 177416001481 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 177416001482 active site 177416001483 putative metal-binding site [ion binding]; other site 177416001484 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 177416001485 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 177416001486 active site 177416001487 multimer interface [polypeptide binding]; other site 177416001488 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 177416001489 predicted active site [active] 177416001490 catalytic triad [active] 177416001491 Homeodomain-like domain; Region: HTH_23; cl17451 177416001492 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001493 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 177416001494 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 177416001495 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 177416001496 S-adenosylmethionine binding site [chemical binding]; other site 177416001497 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 177416001498 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 177416001499 FMN binding site [chemical binding]; other site 177416001500 active site 177416001501 catalytic residues [active] 177416001502 substrate binding site [chemical binding]; other site 177416001503 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 177416001504 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 177416001505 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 177416001506 putative active site [active] 177416001507 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416001508 AAA domain; Region: AAA_21; pfam13304 177416001509 Walker A/P-loop; other site 177416001510 Walker A/P-loop; other site 177416001511 ATP binding site [chemical binding]; other site 177416001512 ATP binding site [chemical binding]; other site 177416001513 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 177416001514 DJ-1 family protein; Region: not_thiJ; TIGR01383 177416001515 conserved cys residue [active] 177416001516 bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional; Region: PRK12759 177416001517 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 177416001518 GSH binding site [chemical binding]; other site 177416001519 catalytic residues [active] 177416001520 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 177416001521 dimer interface [polypeptide binding]; other site 177416001522 putative radical transfer pathway; other site 177416001523 diiron center [ion binding]; other site 177416001524 tyrosyl radical; other site 177416001525 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 177416001526 GSH binding site [chemical binding]; other site 177416001527 catalytic residues [active] 177416001528 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 177416001529 Class I ribonucleotide reductase; Region: RNR_I; cd01679 177416001530 active site 177416001531 dimer interface [polypeptide binding]; other site 177416001532 catalytic residues [active] 177416001533 effector binding site; other site 177416001534 R2 peptide binding site; other site 177416001535 malate dehydrogenase; Reviewed; Region: PRK06223 177416001536 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 177416001537 NAD(P) binding site [chemical binding]; other site 177416001538 dimer interface [polypeptide binding]; other site 177416001539 tetramer (dimer of dimers) interface [polypeptide binding]; other site 177416001540 substrate binding site [chemical binding]; other site 177416001541 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 177416001542 diiron binding motif [ion binding]; other site 177416001543 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177416001544 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 177416001545 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177416001546 catalytic residue [active] 177416001547 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 177416001548 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 177416001549 motif II; other site 177416001550 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 177416001551 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 177416001552 PhnA protein; Region: PhnA; pfam03831 177416001553 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 177416001554 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 177416001555 active site 177416001556 catalytic site [active] 177416001557 substrate binding site [chemical binding]; other site 177416001558 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 177416001559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 177416001560 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 177416001561 tetrameric interface [polypeptide binding]; other site 177416001562 NAD binding site [chemical binding]; other site 177416001563 catalytic residues [active] 177416001564 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 177416001565 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 177416001566 putative homodimer interface [polypeptide binding]; other site 177416001567 putative homotetramer interface [polypeptide binding]; other site 177416001568 putative allosteric switch controlling residues; other site 177416001569 putative metal binding site [ion binding]; other site 177416001570 putative homodimer-homodimer interface [polypeptide binding]; other site 177416001571 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177416001572 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 177416001573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416001574 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 177416001575 dimerization interface [polypeptide binding]; other site 177416001576 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 177416001577 catalytic triad [active] 177416001578 dimer interface [polypeptide binding]; other site 177416001579 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 177416001580 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 177416001581 putative NAD(P) binding site [chemical binding]; other site 177416001582 homodimer interface [polypeptide binding]; other site 177416001583 cytidylate kinase; Provisional; Region: cmk; PRK00023 177416001584 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 177416001585 CMP-binding site; other site 177416001586 The sites determining sugar specificity; other site 177416001587 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 177416001588 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416001589 catalytic residue [active] 177416001590 Homeodomain-like domain; Region: HTH_23; cl17451 177416001591 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001592 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 177416001593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416001594 Walker A/P-loop; other site 177416001595 ATP binding site [chemical binding]; other site 177416001596 Q-loop/lid; other site 177416001597 ABC transporter signature motif; other site 177416001598 Walker B; other site 177416001599 D-loop; other site 177416001600 H-loop/switch region; other site 177416001601 TOBE domain; Region: TOBE_2; pfam08402 177416001602 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 177416001603 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 177416001604 dimer interface [polypeptide binding]; other site 177416001605 conserved gate region; other site 177416001606 putative PBP binding loops; other site 177416001607 ABC-ATPase subunit interface; other site 177416001608 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 177416001609 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 177416001610 dimer interface [polypeptide binding]; other site 177416001611 conserved gate region; other site 177416001612 putative PBP binding loops; other site 177416001613 ABC-ATPase subunit interface; other site 177416001614 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416001615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416001616 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416001617 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416001618 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 177416001619 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 177416001620 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 177416001621 motif II; other site 177416001622 hypothetical protein; Provisional; Region: PRK14013 177416001623 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 177416001624 GST_N family, Metaxin subfamily, Metaxin-like proteins; a heterogenous group of proteins, predominantly uncharacterized, with similarity to metaxins and GSTs. Metaxin 1 is a component of a preprotein import complex of the mitochondrial outer membrane. It...; Region: GST_N_Metaxin_like; cd03080 177416001625 putative C-terminal domain interface [polypeptide binding]; other site 177416001626 putative GSH binding site [chemical binding]; other site 177416001627 putative dimer interface [polypeptide binding]; other site 177416001628 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 177416001629 putative N-terminal domain interface [polypeptide binding]; other site 177416001630 POT family; Region: PTR2; cl17359 177416001631 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 177416001632 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 177416001633 active site 177416001634 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177416001635 dimer interface [polypeptide binding]; other site 177416001636 substrate binding site [chemical binding]; other site 177416001637 catalytic residues [active] 177416001638 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 177416001639 Prephenate dehydratase; Region: PDT; pfam00800 177416001640 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 177416001641 putative L-Phe binding site [chemical binding]; other site 177416001642 Protein of unknown function DUF45; Region: DUF45; pfam01863 177416001643 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 177416001644 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 177416001645 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 177416001646 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 177416001647 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 177416001648 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416001649 catalytic residue [active] 177416001650 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 177416001651 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 177416001652 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 177416001653 active site 177416001654 (T/H)XGH motif; other site 177416001655 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177416001656 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 177416001657 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177416001658 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177416001659 ligand binding site [chemical binding]; other site 177416001660 CRISPR/Cas system-associated protein Cas9; Region: Csx12; cd09704 177416001661 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 177416001662 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416001663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416001664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416001665 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416001666 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 177416001667 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 177416001668 hinge; other site 177416001669 active site 177416001670 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 177416001671 RNA/DNA hybrid binding site [nucleotide binding]; other site 177416001672 active site 177416001673 cytoplasmic asparaginase I; Provisional; Region: ansA; PRK09461 177416001674 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 177416001675 active site 177416001676 homodimer interface [polypeptide binding]; other site 177416001677 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_cladeA; cd00883 177416001678 active site clefts [active] 177416001679 zinc binding site [ion binding]; other site 177416001680 dimer interface [polypeptide binding]; other site 177416001681 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 177416001682 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416001683 catalytic residue [active] 177416001684 Rubredoxin [Energy production and conversion]; Region: COG1773 177416001685 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 177416001686 iron binding site [ion binding]; other site 177416001687 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; cl19499 177416001688 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 177416001689 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 177416001690 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 177416001691 dimer interface [polypeptide binding]; other site 177416001692 active site 177416001693 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 177416001694 dimer interface [polypeptide binding]; other site 177416001695 active site 177416001696 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 177416001697 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 177416001698 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; cl00454 177416001699 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 177416001700 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 177416001701 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 177416001702 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 177416001703 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 177416001704 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 177416001705 active site 177416001706 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 177416001707 active site 177416001708 substrate binding site [chemical binding]; other site 177416001709 Mg2+ binding site [ion binding]; other site 177416001710 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 177416001711 VirK protein; Region: VirK; pfam06903 177416001712 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 177416001713 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 177416001714 putative active site [active] 177416001715 catalytic triad [active] 177416001716 putative dimer interface [polypeptide binding]; other site 177416001717 FOG: CBS domain [General function prediction only]; Region: COG0517 177416001718 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 177416001719 Transporter associated domain; Region: CorC_HlyC; smart01091 177416001720 metal-binding heat shock protein; Provisional; Region: PRK00016 177416001721 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 177416001722 PhoH-like protein; Region: PhoH; pfam02562 177416001723 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 177416001724 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 177416001725 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 177416001726 FeS/SAM binding site; other site 177416001727 TRAM domain; Region: TRAM; pfam01938 177416001728 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 177416001729 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 177416001730 thymidine kinase; Provisional; Region: PRK04296 177416001731 trigger factor; Provisional; Region: tig; PRK01490 177416001732 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 177416001733 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177416001734 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 177416001735 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 177416001736 oligomer interface [polypeptide binding]; other site 177416001737 active site residues [active] 177416001738 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 177416001739 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 177416001740 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 177416001741 Walker A motif; other site 177416001742 ATP binding site [chemical binding]; other site 177416001743 Walker B motif; other site 177416001744 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 177416001745 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 177416001746 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 177416001747 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 177416001748 Walker A motif; other site 177416001749 ATP binding site [chemical binding]; other site 177416001750 Walker B motif; other site 177416001751 arginine finger; other site 177416001752 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 177416001753 histone-like DNA-binding protein HU; Region: HU; cd13831 177416001754 dimer interface [polypeptide binding]; other site 177416001755 DNA binding site [nucleotide binding] 177416001756 SurA N-terminal domain; Region: SurA_N_2; pfam13623 177416001757 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 177416001758 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 177416001759 bacterial Hfq-like; Region: Hfq; cd01716 177416001760 hexamer interface [polypeptide binding]; other site 177416001761 Sm1 motif; other site 177416001762 RNA binding site [nucleotide binding]; other site 177416001763 Sm2 motif; other site 177416001764 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 177416001765 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 177416001766 HflX GTPase family; Region: HflX; cd01878 177416001767 G1 box; other site 177416001768 GTP/Mg2+ binding site [chemical binding]; other site 177416001769 Switch I region; other site 177416001770 G2 box; other site 177416001771 G3 box; other site 177416001772 Switch II region; other site 177416001773 G4 box; other site 177416001774 G5 box; other site 177416001775 hypothetical protein; Provisional; Region: PRK07588 177416001776 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 177416001777 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 177416001778 HflK protein; Region: hflK; TIGR01933 177416001779 HflC protein; Region: hflC; TIGR01932 177416001780 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 177416001781 Low molecular weight phosphatase family; Region: LMWPc; cd00115 177416001782 active site 177416001783 Predicted GTPase [General function prediction only]; Region: COG0218 177416001784 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 177416001785 G1 box; other site 177416001786 GTP/Mg2+ binding site [chemical binding]; other site 177416001787 Switch I region; other site 177416001788 G2 box; other site 177416001789 G3 box; other site 177416001790 Switch II region; other site 177416001791 G4 box; other site 177416001792 G5 box; other site 177416001793 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 177416001794 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 177416001795 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 177416001796 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 177416001797 putative valine binding site [chemical binding]; other site 177416001798 dimer interface [polypeptide binding]; other site 177416001799 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 177416001800 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 177416001801 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 177416001802 ATP binding site [chemical binding]; other site 177416001803 putative Mg++ binding site [ion binding]; other site 177416001804 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 177416001805 nucleotide binding region [chemical binding]; other site 177416001806 ATP-binding site [chemical binding]; other site 177416001807 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 177416001808 YccA-like proteins; Region: YccA_like; cd10433 177416001809 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 177416001810 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 177416001811 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 177416001812 minor groove reading motif; other site 177416001813 helix-hairpin-helix signature motif; other site 177416001814 substrate binding pocket [chemical binding]; other site 177416001815 active site 177416001816 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 177416001817 ferredoxin; Provisional; Region: PRK08764 177416001818 Putative Fe-S cluster; Region: FeS; cl17515 177416001819 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 177416001820 glutaredoxin 2; Provisional; Region: PRK10387 177416001821 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 177416001822 C-terminal domain interface [polypeptide binding]; other site 177416001823 GSH binding site (G-site) [chemical binding]; other site 177416001824 catalytic residues [active] 177416001825 putative dimer interface [polypeptide binding]; other site 177416001826 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 177416001827 N-terminal domain interface [polypeptide binding]; other site 177416001828 POT family; Region: PTR2; cl17359 177416001829 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 177416001830 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 177416001831 Ferritin-like domain; Region: Ferritin; pfam00210 177416001832 ferroxidase diiron center [ion binding]; other site 177416001833 lipoyl synthase; Provisional; Region: PRK05481 177416001834 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 177416001835 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 177416001836 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 177416001837 conserved cys residue [active] 177416001838 hypothetical protein; Validated; Region: PRK00110 177416001839 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 177416001840 active site 177416001841 putative DNA-binding cleft [nucleotide binding]; other site 177416001842 dimer interface [polypeptide binding]; other site 177416001843 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 177416001844 RuvA N terminal domain; Region: RuvA_N; pfam01330 177416001845 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 177416001846 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 177416001847 RmuC family; Region: RmuC; pfam02646 177416001848 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 177416001849 dimerization interface [polypeptide binding]; other site 177416001850 putative Zn2+ binding site [ion binding]; other site 177416001851 putative DNA binding site [nucleotide binding]; other site 177416001852 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 177416001853 histidine decarboxylase; Provisional; Region: PRK02769 177416001854 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416001855 catalytic residue [active] 177416001856 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 177416001857 intersubunit interface [polypeptide binding]; other site 177416001858 active site 177416001859 Zn2+ binding site [ion binding]; other site 177416001860 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 177416001861 active site 177416001862 DNA binding site [nucleotide binding] 177416001863 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 177416001864 catalytic triad [active] 177416001865 conserved cis-peptide bond; other site 177416001866 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 177416001867 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 177416001868 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177416001869 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416001870 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 177416001871 putative substrate translocation pore; other site 177416001872 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 177416001873 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 177416001874 putative active site [active] 177416001875 Zn binding site [ion binding]; other site 177416001876 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 177416001877 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 177416001878 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177416001879 active site 177416001880 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 177416001881 5S rRNA interface [nucleotide binding]; other site 177416001882 CTC domain interface [polypeptide binding]; other site 177416001883 L16 interface [polypeptide binding]; other site 177416001884 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 177416001885 Domain of unknown function DUF21; Region: DUF21; pfam01595 177416001886 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 177416001887 Transporter associated domain; Region: CorC_HlyC; pfam03471 177416001888 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 177416001889 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177416001890 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 177416001891 S-adenosylmethionine binding site [chemical binding]; other site 177416001892 GTP-binding protein YchF; Reviewed; Region: PRK09601 177416001893 YchF GTPase; Region: YchF; cd01900 177416001894 G1 box; other site 177416001895 GTP/Mg2+ binding site [chemical binding]; other site 177416001896 Switch I region; other site 177416001897 G2 box; other site 177416001898 Switch II region; other site 177416001899 G3 box; other site 177416001900 G4 box; other site 177416001901 G5 box; other site 177416001902 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 177416001903 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 177416001904 putative active site [active] 177416001905 catalytic residue [active] 177416001906 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 177416001907 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 177416001908 dimerization domain [polypeptide binding]; other site 177416001909 dimer interface [polypeptide binding]; other site 177416001910 catalytic residues [active] 177416001911 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 177416001912 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 177416001913 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 177416001914 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 177416001915 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177416001916 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 177416001917 voltage-gated potassium channel; Provisional; Region: PRK10537 177416001918 Ion channel; Region: Ion_trans_2; pfam07885 177416001919 POT family; Region: PTR2; cl17359 177416001920 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 177416001921 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 177416001922 Walker A motif; other site 177416001923 ATP binding site [chemical binding]; other site 177416001924 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 177416001925 Walker B motif; other site 177416001926 arginine finger; other site 177416001927 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 177416001928 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 177416001929 active site 177416001930 HslU subunit interaction site [polypeptide binding]; other site 177416001931 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 177416001932 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 177416001933 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 177416001934 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 177416001935 active site 177416001936 HIGH motif; other site 177416001937 dimer interface [polypeptide binding]; other site 177416001938 KMSKS motif; other site 177416001939 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 177416001940 RNA binding surface [nucleotide binding]; other site 177416001941 Homeodomain-like domain; Region: HTH_23; cl17451 177416001942 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416001943 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 177416001944 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 177416001945 DNA binding site [nucleotide binding] 177416001946 catalytic residue [active] 177416001947 H2TH interface [polypeptide binding]; other site 177416001948 putative catalytic residues [active] 177416001949 turnover-facilitating residue; other site 177416001950 intercalation triad [nucleotide binding]; other site 177416001951 8OG recognition residue [nucleotide binding]; other site 177416001952 putative reading head residues; other site 177416001953 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 177416001954 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 177416001955 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 177416001956 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 177416001957 acyl-activating enzyme (AAE) consensus motif; other site 177416001958 putative AMP binding site [chemical binding]; other site 177416001959 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 177416001960 Cell division protein FtsL; Region: FtsL; cl11433 177416001961 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 177416001962 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 177416001963 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 177416001964 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 177416001965 16S/18S rRNA binding site [nucleotide binding]; other site 177416001966 S13e-L30e interaction site [polypeptide binding]; other site 177416001967 25S rRNA binding site [nucleotide binding]; other site 177416001968 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 177416001969 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 177416001970 oligomer interface [polypeptide binding]; other site 177416001971 RNA binding site [nucleotide binding]; other site 177416001972 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 177416001973 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 177416001974 RNase E interface [polypeptide binding]; other site 177416001975 trimer interface [polypeptide binding]; other site 177416001976 active site 177416001977 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 177416001978 putative nucleic acid binding region [nucleotide binding]; other site 177416001979 G-X-X-G motif; other site 177416001980 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 177416001981 RNA binding site [nucleotide binding]; other site 177416001982 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 177416001983 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 177416001984 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 177416001985 ATP-binding site [chemical binding]; other site 177416001986 Sugar specificity; other site 177416001987 Pyrimidine base specificity; other site 177416001988 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 177416001989 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 177416001990 TRAM domain; Region: TRAM; cl01282 177416001991 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 177416001992 S-adenosylmethionine binding site [chemical binding]; other site 177416001993 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 177416001994 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 177416001995 Major Facilitator Superfamily; Region: MFS_1; pfam07690 177416001996 putative substrate translocation pore; other site 177416001997 enolase; Provisional; Region: eno; PRK00077 177416001998 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 177416001999 dimer interface [polypeptide binding]; other site 177416002000 metal binding site [ion binding]; metal-binding site 177416002001 substrate binding pocket [chemical binding]; other site 177416002002 Septum formation initiator; Region: DivIC; cl17659 177416002003 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 177416002004 substrate binding site; other site 177416002005 dimer interface; other site 177416002006 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 177416002007 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 177416002008 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 177416002009 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 177416002010 NAD(P) binding site [chemical binding]; other site 177416002011 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 177416002012 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 177416002013 substrate-cofactor binding pocket; other site 177416002014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416002015 catalytic residue [active] 177416002016 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 177416002017 Glyco_18 domain; Region: Glyco_18; smart00636 177416002018 active site 177416002019 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 177416002020 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 177416002021 aromatic chitin/cellulose binding site residues [chemical binding]; other site 177416002022 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 177416002023 aromatic chitin/cellulose binding site residues [chemical binding]; other site 177416002024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177416002025 active site 177416002026 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; cl01268 177416002027 putative substrate binding pocket [chemical binding]; other site 177416002028 trimer interface [polypeptide binding]; other site 177416002029 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 177416002030 metabolite-proton symporter; Region: 2A0106; TIGR00883 177416002031 putative substrate translocation pore; other site 177416002032 dGTP triphosphohydrolase [Nucleotide transport and metabolism]; Region: Dgt; COG0232 177416002033 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177416002034 Zn2+ binding site [ion binding]; other site 177416002035 Mg2+ binding site [ion binding]; other site 177416002036 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 177416002037 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 177416002038 dimer interface [polypeptide binding]; other site 177416002039 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 177416002040 active site 177416002041 heme binding site [chemical binding]; other site 177416002042 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 177416002043 Homeodomain-like domain; Region: HTH_23; cl17451 177416002044 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416002045 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 177416002046 classical (c) SDRs; Region: SDR_c; cd05233 177416002047 NAD(P) binding site [chemical binding]; other site 177416002048 active site 177416002049 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 177416002050 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 177416002051 putative substrate translocation pore; other site 177416002052 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 177416002053 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 177416002054 active site 177416002055 catalytic site [active] 177416002056 metal binding site [ion binding]; metal-binding site 177416002057 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 177416002058 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 177416002059 Walker A/P-loop; other site 177416002060 ATP binding site [chemical binding]; other site 177416002061 Q-loop/lid; other site 177416002062 ABC transporter signature motif; other site 177416002063 Walker B; other site 177416002064 D-loop; other site 177416002065 H-loop/switch region; other site 177416002066 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 177416002067 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 177416002068 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416002069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416002070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416002071 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416002072 Chorismate mutase type II; Region: CM_2; smart00830 177416002073 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 177416002074 catalytic residues [active] 177416002075 dimer interface [polypeptide binding]; other site 177416002076 Putative serine esterase (DUF676); Region: DUF676; pfam05057 177416002077 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 177416002078 Putative lysophospholipase; Region: Hydrolase_4; cl19140 177416002079 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 177416002080 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 177416002081 putative substrate binding site [chemical binding]; other site 177416002082 putative ATP binding site [chemical binding]; other site 177416002083 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 177416002084 RNA binding surface [nucleotide binding]; other site 177416002085 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 177416002086 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 177416002087 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177416002088 HlyD family secretion protein; Region: HlyD_3; pfam13437 177416002089 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 177416002090 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 177416002091 Bacterial transcriptional regulator; Region: IclR; pfam01614 177416002092 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 177416002093 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 177416002094 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 177416002095 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 177416002096 KamA family protein; Region: TIGR00238; cl15377 177416002097 Radical SAM superfamily; Region: Radical_SAM; pfam04055 177416002098 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 177416002099 FeS/SAM binding site; other site 177416002100 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 177416002101 DNA-binding site [nucleotide binding]; DNA binding site 177416002102 RNA-binding motif; other site 177416002103 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 177416002104 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 177416002105 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 177416002106 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 177416002107 active site 177416002108 tetramer interface; other site 177416002109 EamA-like transporter family; Region: EamA; pfam00892 177416002110 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 177416002111 EamA-like transporter family; Region: EamA; pfam00892 177416002112 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 177416002113 recombination protein F; Reviewed; Region: recF; PRK00064 177416002114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416002115 Walker A/P-loop; other site 177416002116 ATP binding site [chemical binding]; other site 177416002117 Q-loop/lid; other site 177416002118 ABC transporter signature motif; other site 177416002119 Walker B; other site 177416002120 D-loop; other site 177416002121 H-loop/switch region; other site 177416002122 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 177416002123 active site 177416002124 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 177416002125 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 177416002126 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177416002127 Homeodomain-like domain; Region: HTH_23; cl17451 177416002128 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416002129 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 177416002130 LPP20 lipoprotein; Region: LPP20; pfam02169 177416002131 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 177416002132 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 177416002133 ATP binding site [chemical binding]; other site 177416002134 putative Mg++ binding site [ion binding]; other site 177416002135 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 177416002136 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 177416002137 SEC-C motif; Region: SEC-C; pfam02810 177416002138 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 177416002139 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 177416002140 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 177416002141 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 177416002142 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 177416002143 catalytic site [active] 177416002144 putative active site [active] 177416002145 putative substrate binding site [chemical binding]; other site 177416002146 HRDC domain; Region: HRDC; pfam00570 177416002147 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 177416002148 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 177416002149 GIY-YIG motif/motif A; other site 177416002150 active site 177416002151 catalytic site [active] 177416002152 putative DNA binding site [nucleotide binding]; other site 177416002153 metal binding site [ion binding]; metal-binding site 177416002154 UvrB/uvrC motif; Region: UVR; pfam02151 177416002155 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 177416002156 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 177416002157 Homeodomain-like domain; Region: HTH_23; cl17451 177416002158 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416002159 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 177416002160 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 177416002161 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 177416002162 NAD binding site [chemical binding]; other site 177416002163 homotetramer interface [polypeptide binding]; other site 177416002164 homodimer interface [polypeptide binding]; other site 177416002165 substrate binding site [chemical binding]; other site 177416002166 active site 177416002167 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 177416002168 hypothetical protein; Provisional; Region: PRK05409 177416002169 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 177416002170 Predicted membrane protein [Function unknown]; Region: COG2259 177416002171 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 177416002172 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 177416002173 putative active site [active] 177416002174 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 177416002175 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 177416002176 substrate binding site [chemical binding]; other site 177416002177 hexamer interface [polypeptide binding]; other site 177416002178 metal binding site [ion binding]; metal-binding site 177416002179 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 177416002180 CoA binding domain; Region: CoA_binding; cl17356 177416002181 Bacterial sugar transferase; Region: Bac_transf; pfam02397 177416002182 UDP-glucose 4-epimerase; Region: PLN02240 177416002183 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 177416002184 NAD binding site [chemical binding]; other site 177416002185 homodimer interface [polypeptide binding]; other site 177416002186 active site 177416002187 substrate binding site [chemical binding]; other site 177416002188 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177416002189 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_4; cd03795 177416002190 putative ADP-binding pocket [chemical binding]; other site 177416002191 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 177416002192 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177416002193 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416002194 Walker A/P-loop; other site 177416002195 ATP binding site [chemical binding]; other site 177416002196 Q-loop/lid; other site 177416002197 ABC transporter signature motif; other site 177416002198 Walker B; other site 177416002199 D-loop; other site 177416002200 H-loop/switch region; other site 177416002201 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 177416002202 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 177416002203 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 177416002204 active site 177416002205 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 177416002206 S-adenosylmethionine binding site [chemical binding]; other site 177416002207 LicD family; Region: LicD; pfam04991 177416002208 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177416002209 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 177416002210 active site 177416002211 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177416002212 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 177416002213 active site 177416002214 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 177416002215 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177416002216 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 177416002217 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 177416002218 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 177416002219 motif II; other site 177416002220 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 177416002221 substrate binding site [chemical binding]; other site 177416002222 ATP binding site [chemical binding]; other site 177416002223 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 177416002224 proposed catalytic triad [active] 177416002225 active site nucleophile [active] 177416002226 Asparaginase [Amino acid transport and metabolism]; Region: COG1446 177416002227 active site 177416002228 dimer interface [polypeptide binding]; other site 177416002229 catalytic nucleophile [active] 177416002230 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 177416002231 metabolite-proton symporter; Region: 2A0106; TIGR00883 177416002232 putative substrate translocation pore; other site 177416002233 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 177416002234 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416002235 poly-gamma-glutamate biosynthesis protein PgsC/CapC; Region: poly_gGlu_PgsC; TIGR04011 177416002236 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 177416002237 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 177416002238 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 177416002239 Zn2+ binding site [ion binding]; other site 177416002240 Mg2+ binding site [ion binding]; other site 177416002241 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 177416002242 synthetase active site [active] 177416002243 NTP binding site [chemical binding]; other site 177416002244 metal binding site [ion binding]; metal-binding site 177416002245 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 177416002246 ACT domain; Region: ACT_4; pfam13291 177416002247 recombination protein RecR; Provisional; Region: PRK13844 177416002248 RecR protein; Region: RecR; pfam02132 177416002249 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 177416002250 putative active site [active] 177416002251 putative metal-binding site [ion binding]; other site 177416002252 tetramer interface [polypeptide binding]; other site 177416002253 hypothetical protein; Validated; Region: PRK00153 177416002254 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 177416002255 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 177416002256 active site 177416002257 homodimer interface [polypeptide binding]; other site 177416002258 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 177416002259 lipoyl attachment site [posttranslational modification]; other site 177416002260 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 177416002261 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 177416002262 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 177416002263 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 177416002264 active site 177416002265 dimer interface [polypeptide binding]; other site 177416002266 motif 1; other site 177416002267 motif 2; other site 177416002268 motif 3; other site 177416002269 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 177416002270 anticodon binding site; other site 177416002271 translation initiation factor IF-3; Region: infC; TIGR00168 177416002272 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 177416002273 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 177416002274 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 177416002275 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 177416002276 23S rRNA binding site [nucleotide binding]; other site 177416002277 L21 binding site [polypeptide binding]; other site 177416002278 L13 binding site [polypeptide binding]; other site 177416002279 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 177416002280 Homeodomain-like domain; Region: HTH_23; cl17451 177416002281 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416002282 Hydrolase of X-linked nucleoside diphosphate N terminal; Region: Nudix_N; pfam12535 177416002283 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_14; cd04672 177416002284 nudix motif; other site 177416002285 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 177416002286 catalytic residue [active] 177416002287 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 177416002288 Sulfate transporter family; Region: Sulfate_transp; cl19250 177416002289 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 177416002290 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 177416002291 TrkA-C domain; Region: TrkA_C; pfam02080 177416002292 TrkA-C domain; Region: TrkA_C; pfam02080 177416002293 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 177416002294 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 177416002295 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177416002296 ligand binding site [chemical binding]; other site 177416002297 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 177416002298 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 177416002299 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 177416002300 Fe-S cluster binding site [ion binding]; other site 177416002301 substrate binding site [chemical binding]; other site 177416002302 catalytic site [active] 177416002303 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 177416002304 homotrimer interaction site [polypeptide binding]; other site 177416002305 active site 177416002306 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 177416002307 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 177416002308 TolQ protein; Region: tolQ; TIGR02796 177416002309 TolR protein; Region: tolR; TIGR02801 177416002310 TolA protein; Region: tolA_full; TIGR02794 177416002311 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 177416002312 TolB amino-terminal domain; Region: TolB_N; pfam04052 177416002313 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 177416002314 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 177416002315 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 177416002316 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 177416002317 ligand binding site [chemical binding]; other site 177416002318 TIGR03643 family protein; Region: TIGR03643 177416002319 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 177416002320 DNA photolyase; Region: DNA_photolyase; pfam00875 177416002321 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 177416002322 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 177416002323 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 177416002324 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 177416002325 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 177416002326 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 177416002327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 177416002328 YheO-like PAS domain; Region: PAS_6; pfam08348 177416002329 HTH domain; Region: HTH_22; pfam13309 177416002330 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177416002331 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; cl17221 177416002332 transmembrane helices; other site 177416002333 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 177416002334 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 177416002335 Protein of unknown function, DUF393; Region: DUF393; pfam04134 177416002336 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 177416002337 putative active site [active] 177416002338 Chorismate lyase; Region: Chor_lyase; cl01230 177416002339 ribonuclease PH; Reviewed; Region: rph; PRK00173 177416002340 Ribonuclease PH; Region: RNase_PH_bact; cd11362 177416002341 hexamer interface [polypeptide binding]; other site 177416002342 active site 177416002343 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 177416002344 heat shock protein HtpX; Provisional; Region: PRK02870 177416002345 LemA family; Region: LemA; cl00742 177416002346 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 177416002347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416002348 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 177416002349 dimerization interface [polypeptide binding]; other site 177416002350 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416002351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416002352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416002353 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416002354 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 177416002355 dimerization interface [polypeptide binding]; other site 177416002356 putative DNA binding site [nucleotide binding]; other site 177416002357 putative Zn2+ binding site [ion binding]; other site 177416002358 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39A; cd02549 177416002359 putative active site [active] 177416002360 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 177416002361 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 177416002362 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 177416002363 Colicin V production protein; Region: Colicin_V; pfam02674 177416002364 DNA repair protein RadA; Provisional; Region: PRK11823 177416002365 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 177416002366 Walker A motif/ATP binding site; other site 177416002367 ATP binding site [chemical binding]; other site 177416002368 Walker B motif; other site 177416002369 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 177416002370 PilZ domain; Region: PilZ; pfam07238 177416002371 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 177416002372 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 177416002373 Tetramer interface [polypeptide binding]; other site 177416002374 active site 177416002375 FMN-binding site [chemical binding]; other site 177416002376 PQ loop repeat; Region: PQ-loop; pfam04193 177416002377 methionine sulfoxide reductase B; Provisional; Region: PRK00222 177416002378 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 177416002379 E-class dimer interface [polypeptide binding]; other site 177416002380 P-class dimer interface [polypeptide binding]; other site 177416002381 active site 177416002382 Cu2+ binding site [ion binding]; other site 177416002383 Zn2+ binding site [ion binding]; other site 177416002384 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 177416002385 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 177416002386 aspartate aminotransferase; Provisional; Region: PRK07568 177416002387 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 177416002388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416002389 homodimer interface [polypeptide binding]; other site 177416002390 catalytic residue [active] 177416002391 Cation efflux family; Region: Cation_efflux; pfam01545 177416002392 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 177416002393 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 177416002394 Walker A/P-loop; other site 177416002395 ATP binding site [chemical binding]; other site 177416002396 Q-loop/lid; other site 177416002397 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 177416002398 ABC transporter signature motif; other site 177416002399 Walker B; other site 177416002400 D-loop; other site 177416002401 H-loop/switch region; other site 177416002402 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 177416002403 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 177416002404 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 177416002405 Pilin (bacterial filament); Region: Pilin; pfam00114 177416002406 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 177416002407 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 177416002408 Pilin (bacterial filament); Region: Pilin; pfam00114 177416002409 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 177416002410 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 177416002411 active site 177416002412 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14180 177416002413 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 177416002414 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 177416002415 homodimer interface [polypeptide binding]; other site 177416002416 NADP binding site [chemical binding]; other site 177416002417 substrate binding site [chemical binding]; other site 177416002418 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 177416002419 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 177416002420 dimerization interface [polypeptide binding]; other site 177416002421 putative ATP binding site [chemical binding]; other site 177416002422 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 177416002423 active site 177416002424 ATP binding site [chemical binding]; other site 177416002425 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 177416002426 substrate binding site [chemical binding]; other site 177416002427 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 177416002428 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 177416002429 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416002430 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 177416002431 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 177416002432 active site 177416002433 substrate binding site [chemical binding]; other site 177416002434 cosubstrate binding site; other site 177416002435 catalytic site [active] 177416002436 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 177416002437 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 177416002438 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416002439 hypothetical protein; Provisional; Region: PRK14682 177416002440 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 177416002441 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 177416002442 active site 177416002443 Zn binding site [ion binding]; other site 177416002444 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 177416002445 hypothetical protein; Provisional; Region: PRK11281 177416002446 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 177416002447 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 177416002448 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 177416002449 O-Antigen ligase; Region: Wzy_C; pfam04932 177416002450 DNA topoisomerase I; Validated; Region: PRK06599 177416002451 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 177416002452 active site 177416002453 interdomain interaction site; other site 177416002454 putative metal-binding site [ion binding]; other site 177416002455 nucleotide binding site [chemical binding]; other site 177416002456 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 177416002457 domain I; other site 177416002458 DNA binding groove [nucleotide binding] 177416002459 phosphate binding site [ion binding]; other site 177416002460 domain II; other site 177416002461 domain III; other site 177416002462 nucleotide binding site [chemical binding]; other site 177416002463 catalytic site [active] 177416002464 domain IV; other site 177416002465 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 177416002466 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 177416002467 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 177416002468 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 177416002469 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 177416002470 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 177416002471 P-loop; other site 177416002472 Magnesium ion binding site [ion binding]; other site 177416002473 ParB-like nuclease domain; Region: ParB; smart00470 177416002474 KorB domain; Region: KorB; pfam08535 177416002475 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 177416002476 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 177416002477 catalytic triad [active] 177416002478 Fatty acyltransferase-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: fatty_acyltransferase_like; cd01846 177416002479 active site 177416002480 catalytic triad [active] 177416002481 oxyanion hole [active] 177416002482 HD domain; Region: HD_3; pfam13023 177416002483 FtsJ-like methyltransferase; Region: FtsJ; cl17430 177416002484 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 177416002485 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 177416002486 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 177416002487 active site 177416002488 HIGH motif; other site 177416002489 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177416002490 KMSKS motif; other site 177416002491 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 177416002492 tRNA binding surface [nucleotide binding]; other site 177416002493 anticodon binding site; other site 177416002494 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 177416002495 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 177416002496 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 177416002497 active site 177416002498 Riboflavin kinase; Region: Flavokinase; pfam01687 177416002499 malate dehydrogenase; Provisional; Region: PRK13529 177416002500 Malic enzyme, N-terminal domain; Region: malic; pfam00390 177416002501 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 177416002502 NAD(P) binding pocket [chemical binding]; other site 177416002503 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 177416002504 Protein of unknown function (DUF3573); Region: DUF3573; pfam12097 177416002505 Homeodomain-like domain; Region: HTH_23; cl17451 177416002506 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416002507 Truncated early to prevent overlap with tRNA-val. Possible point mutation resulting in lost stop codon and run-through of sequence ORF ftt0921 hypothetical membrane protein 177416002508 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 177416002509 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 177416002510 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 177416002511 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 177416002512 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 177416002513 S-adenosylmethionine binding site [chemical binding]; other site 177416002514 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 177416002515 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 177416002516 putative active site [active] 177416002517 substrate binding site [chemical binding]; other site 177416002518 putative cosubstrate binding site; other site 177416002519 catalytic site [active] 177416002520 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 177416002521 substrate binding site [chemical binding]; other site 177416002522 glutathione synthetase; Provisional; Region: PRK05246 177416002523 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 177416002524 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416002525 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 177416002526 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 177416002527 inhibitor-cofactor binding pocket; inhibition site 177416002528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416002529 catalytic residue [active] 177416002530 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 177416002531 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 177416002532 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 177416002533 putative substrate translocation pore; other site 177416002534 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 177416002535 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 177416002536 nucleotide binding site [chemical binding]; other site 177416002537 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 177416002538 AAA domain; Region: AAA_26; pfam13500 177416002539 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 177416002540 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 177416002541 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 177416002542 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 177416002543 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416002544 catalytic residue [active] 177416002545 biotin synthase; Region: bioB; TIGR00433 177416002546 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 177416002547 FeS/SAM binding site; other site 177416002548 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 177416002549 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 177416002550 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 177416002551 inhibitor-cofactor binding pocket; inhibition site 177416002552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416002553 catalytic residue [active] 177416002554 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 177416002555 active site 177416002556 purine riboside binding site [chemical binding]; other site 177416002557 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 177416002558 active site 2 [active] 177416002559 active site 1 [active] 177416002560 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 177416002561 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 177416002562 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 177416002563 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 177416002564 catalytic center binding site [active] 177416002565 ATP binding site [chemical binding]; other site 177416002566 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 177416002567 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 177416002568 substrate binding pocket [chemical binding]; other site 177416002569 dimer interface [polypeptide binding]; other site 177416002570 inhibitor binding site; inhibition site 177416002571 Dihydroneopterin aldolase; Region: FolB; smart00905 177416002572 active site 177416002573 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 177416002574 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 177416002575 acyl-activating enzyme (AAE) consensus motif; other site 177416002576 AMP binding site [chemical binding]; other site 177416002577 active site 177416002578 CoA binding site [chemical binding]; other site 177416002579 aminodeoxychorismate synthase; Provisional; Region: PRK07508 177416002580 chorismate binding enzyme; Region: Chorismate_bind; cl10555 177416002581 Aminotransferase class IV; Region: Aminotran_4; pfam01063 177416002582 substrate-cofactor binding pocket; other site 177416002583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416002584 homodimer interface [polypeptide binding]; other site 177416002585 catalytic residue [active] 177416002586 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 177416002587 Glutamine amidotransferase class-I; Region: GATase; pfam00117 177416002588 glutamine binding [chemical binding]; other site 177416002589 catalytic triad [active] 177416002590 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 177416002591 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 177416002592 active site 177416002593 catalytic tetrad [active] 177416002594 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 177416002595 active site 177416002596 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 177416002597 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 177416002598 ATP binding site [chemical binding]; other site 177416002599 Mg++ binding site [ion binding]; other site 177416002600 motif III; other site 177416002601 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 177416002602 nucleotide binding region [chemical binding]; other site 177416002603 ATP-binding site [chemical binding]; other site 177416002604 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 177416002605 POT family; Region: PTR2; cl17359 177416002606 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 177416002607 putative substrate translocation pore; other site 177416002608 Putative heavy-metal-binding; Region: YbjQ_1; pfam01906 177416002609 glutathione reductase; Validated; Region: PRK06116 177416002610 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 177416002611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177416002612 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 177416002613 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 177416002614 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 177416002615 AAA domain; Region: AAA_33; pfam13671 177416002616 AAA domain; Region: AAA_17; cl19128 177416002617 short chain dehydrogenase; Provisional; Region: PRK07577 177416002618 classical (c) SDRs; Region: SDR_c; cd05233 177416002619 NAD(P) binding site [chemical binding]; other site 177416002620 active site 177416002621 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 177416002622 putative active site [active] 177416002623 putative catalytic site [active] 177416002624 putative DNA binding site [nucleotide binding]; other site 177416002625 putative phosphate binding site [ion binding]; other site 177416002626 metal binding site A [ion binding]; metal-binding site 177416002627 putative AP binding site [nucleotide binding]; other site 177416002628 putative metal binding site B [ion binding]; other site 177416002629 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 177416002630 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 177416002631 active site 177416002632 Zn binding site [ion binding]; other site 177416002633 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 177416002634 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 177416002635 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 177416002636 potential catalytic triad [active] 177416002637 conserved cys residue [active] 177416002638 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 177416002639 signal recognition particle protein; Provisional; Region: PRK10867 177416002640 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 177416002641 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 177416002642 P loop; other site 177416002643 GTP binding site [chemical binding]; other site 177416002644 Signal peptide binding domain; Region: SRP_SPB; pfam02978 177416002645 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177416002646 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 177416002647 rRNA binding site [nucleotide binding]; other site 177416002648 predicted 30S ribosome binding site; other site 177416002649 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 177416002650 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 177416002651 TrkA-N domain; Region: TrkA_N; pfam02254 177416002652 TrkA-N domain; Region: TrkA_N; pfam02254 177416002653 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 177416002654 Rrf2 family protein; Region: rrf2_super; TIGR00738 177416002655 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 177416002656 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 177416002657 FeS assembly ATPase SufC; Region: sufC; TIGR01978 177416002658 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 177416002659 Walker A/P-loop; other site 177416002660 ATP binding site [chemical binding]; other site 177416002661 Q-loop/lid; other site 177416002662 ABC transporter signature motif; other site 177416002663 Walker B; other site 177416002664 D-loop; other site 177416002665 H-loop/switch region; other site 177416002666 FeS assembly protein SufD; Region: sufD; TIGR01981 177416002667 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 177416002668 catalytic residues [active] 177416002669 Transcriptional regulators [Transcription]; Region: MarR; COG1846 177416002670 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 177416002671 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 177416002672 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 177416002673 hypothetical protein; Provisional; Region: PRK07505 177416002674 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 177416002675 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416002676 catalytic residue [active] 177416002677 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; cl18945 177416002678 PAS fold; Region: PAS_4; pfam08448 177416002679 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 177416002680 active site 177416002681 8-oxo-dGMP binding site [chemical binding]; other site 177416002682 nudix motif; other site 177416002683 metal binding site [ion binding]; metal-binding site 177416002684 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 177416002685 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 177416002686 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 177416002687 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 177416002688 Transglutaminase/protease-like homologues; Region: TGc; smart00460 177416002689 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 177416002690 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 177416002691 active site 177416002692 HIGH motif; other site 177416002693 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 177416002694 KMSKS motif; other site 177416002695 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 177416002696 tRNA binding surface [nucleotide binding]; other site 177416002697 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 177416002698 Lipopolysaccharide-assembly; Region: LptE; cl01125 177416002699 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 177416002700 Mechanosensitive ion channel; Region: MS_channel; pfam00924 177416002701 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 177416002702 trimer interface [polypeptide binding]; other site 177416002703 active site 177416002704 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 177416002705 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 177416002706 Walker A motif; other site 177416002707 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 177416002708 metabolite-proton symporter; Region: 2A0106; TIGR00883 177416002709 putative substrate translocation pore; other site 177416002710 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 177416002711 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 177416002712 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar1_1; cd09156 177416002713 putative active site [active] 177416002714 catalytic site [active] 177416002715 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 177416002716 putative active site [active] 177416002717 catalytic site [active] 177416002718 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 177416002719 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 177416002720 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 177416002721 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 177416002722 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 177416002723 metal binding site 2 [ion binding]; metal-binding site 177416002724 putative DNA binding helix; other site 177416002725 metal binding site 1 [ion binding]; metal-binding site 177416002726 dimer interface [polypeptide binding]; other site 177416002727 structural Zn2+ binding site [ion binding]; other site 177416002728 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 177416002729 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 177416002730 putative tRNA-binding site [nucleotide binding]; other site 177416002731 B3/4 domain; Region: B3_4; pfam03483 177416002732 tRNA synthetase B5 domain; Region: B5; smart00874 177416002733 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 177416002734 dimer interface [polypeptide binding]; other site 177416002735 motif 1; other site 177416002736 motif 3; other site 177416002737 motif 2; other site 177416002738 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 177416002739 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 177416002740 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 177416002741 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 177416002742 dimer interface [polypeptide binding]; other site 177416002743 motif 1; other site 177416002744 active site 177416002745 motif 2; other site 177416002746 motif 3; other site 177416002747 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177416002748 EamA-like transporter family; Region: EamA; pfam00892 177416002749 EamA-like transporter family; Region: EamA; pfam00892 177416002750 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 177416002751 POT family; Region: PTR2; cl17359 177416002752 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 177416002753 putative substrate translocation pore; other site 177416002754 MFS/sugar transport protein; Region: MFS_2; pfam13347 177416002755 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 177416002756 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 177416002757 non-specific DNA binding site [nucleotide binding]; other site 177416002758 salt bridge; other site 177416002759 sequence-specific DNA binding site [nucleotide binding]; other site 177416002760 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 177416002761 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 177416002762 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 177416002763 Walker A motif; other site 177416002764 ATP binding site [chemical binding]; other site 177416002765 Walker B motif; other site 177416002766 arginine finger; other site 177416002767 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 177416002768 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 177416002769 classical (c) SDRs; Region: SDR_c; cd05233 177416002770 NAD(P) binding site [chemical binding]; other site 177416002771 active site 177416002772 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 177416002773 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 177416002774 active site 177416002775 catalytic triad [active] 177416002776 oxyanion hole [active] 177416002777 switch loop; other site 177416002778 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 177416002779 putative active site pocket [active] 177416002780 dimerization interface [polypeptide binding]; other site 177416002781 putative catalytic residue [active] 177416002782 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 177416002783 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 177416002784 TPP-binding site; other site 177416002785 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 177416002786 PYR/PP interface [polypeptide binding]; other site 177416002787 dimer interface [polypeptide binding]; other site 177416002788 TPP binding site [chemical binding]; other site 177416002789 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177416002790 GMP synthase; Reviewed; Region: guaA; PRK00074 177416002791 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 177416002792 AMP/PPi binding site [chemical binding]; other site 177416002793 candidate oxyanion hole; other site 177416002794 catalytic triad [active] 177416002795 potential glutamine specificity residues [chemical binding]; other site 177416002796 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 177416002797 ATP Binding subdomain [chemical binding]; other site 177416002798 Ligand Binding sites [chemical binding]; other site 177416002799 Dimerization subdomain; other site 177416002800 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 177416002801 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 177416002802 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 177416002803 dimerization interface 3.5A [polypeptide binding]; other site 177416002804 active site 177416002805 Purine nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pnp; COG0005 177416002806 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 177416002807 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 177416002808 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 177416002809 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 177416002810 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 177416002811 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 177416002812 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 177416002813 Walker A/P-loop; other site 177416002814 ATP binding site [chemical binding]; other site 177416002815 Q-loop/lid; other site 177416002816 ABC transporter signature motif; other site 177416002817 Walker B; other site 177416002818 D-loop; other site 177416002819 H-loop/switch region; other site 177416002820 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 177416002821 OstA-like protein; Region: OstA; cl00844 177416002822 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 177416002823 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 177416002824 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 177416002825 active site 177416002826 motif I; other site 177416002827 motif II; other site 177416002828 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 177416002829 dimer interface [polypeptide binding]; other site 177416002830 substrate binding site [chemical binding]; other site 177416002831 metal binding sites [ion binding]; metal-binding site 177416002832 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 177416002833 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 177416002834 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 177416002835 Protein of unknown function (DUF493); Region: DUF493; pfam04359 177416002836 lipoate-protein ligase B; Provisional; Region: PRK14342 177416002837 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 177416002838 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177416002839 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 177416002840 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 177416002841 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 177416002842 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 177416002843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177416002844 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 177416002845 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 177416002846 DNA binding residues [nucleotide binding] 177416002847 CHC2 zinc finger; Region: zf-CHC2; pfam01807 177416002848 DNA primase; Validated; Region: dnaG; PRK05667 177416002849 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 177416002850 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 177416002851 active site 177416002852 metal binding site [ion binding]; metal-binding site 177416002853 interdomain interaction site; other site 177416002854 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 177416002855 Yqey-like protein; Region: YqeY; pfam09424 177416002856 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 177416002857 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 177416002858 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 177416002859 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 177416002860 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 177416002861 N-acetyl-D-glucosamine binding site [chemical binding]; other site 177416002862 catalytic residue [active] 177416002863 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 177416002864 active site 177416002865 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 177416002866 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 177416002867 Ligand Binding Site [chemical binding]; other site 177416002868 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 177416002869 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 177416002870 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 177416002871 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 177416002872 substrate binding pocket [chemical binding]; other site 177416002873 chain length determination region; other site 177416002874 substrate-Mg2+ binding site; other site 177416002875 catalytic residues [active] 177416002876 aspartate-rich region 1; other site 177416002877 active site lid residues [active] 177416002878 aspartate-rich region 2; other site 177416002879 PQ loop repeat; Region: PQ-loop; pfam04193 177416002880 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 177416002881 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 177416002882 CysD dimerization site [polypeptide binding]; other site 177416002883 G1 box; other site 177416002884 putative GEF interaction site [polypeptide binding]; other site 177416002885 GTP/Mg2+ binding site [chemical binding]; other site 177416002886 Switch I region; other site 177416002887 G2 box; other site 177416002888 G3 box; other site 177416002889 Switch II region; other site 177416002890 G4 box; other site 177416002891 G5 box; other site 177416002892 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 177416002893 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 177416002894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 177416002895 preprotein translocase subunit SecA; Validated; Region: secA; CHL00122 177416002896 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 177416002897 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 177416002898 RNA binding surface [nucleotide binding]; other site 177416002899 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 177416002900 probable active site [active] 177416002901 Tetratricopeptide repeat; Region: TPR_12; pfam13424 177416002902 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 177416002903 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 177416002904 FeS/SAM binding site; other site 177416002905 replicative DNA helicase; Region: DnaB; TIGR00665 177416002906 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 177416002907 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 177416002908 Walker A motif; other site 177416002909 ATP binding site [chemical binding]; other site 177416002910 Walker B motif; other site 177416002911 DNA binding loops [nucleotide binding] 177416002912 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 177416002913 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 177416002914 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 177416002915 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 177416002916 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 177416002917 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 177416002918 Homeodomain-like domain; Region: HTH_23; cl17451 177416002919 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416002920 Abi-like protein; Region: Abi_2; pfam07751 177416002921 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 177416002922 Antirestriction protein (ArdA); Region: ArdA; pfam07275 177416002923 Homeodomain-like domain; Region: HTH_23; cl17451 177416002924 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416002925 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 177416002926 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 177416002927 non-specific DNA binding site [nucleotide binding]; other site 177416002928 salt bridge; other site 177416002929 sequence-specific DNA binding site [nucleotide binding]; other site 177416002930 HipA N-terminal domain; Region: couple_hipA; TIGR03071 177416002931 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 177416002932 HipA-like N-terminal domain; Region: HipA_N; pfam07805 177416002933 HipA-like C-terminal domain; Region: HipA_C; pfam07804 177416002934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 177416002935 Putative exonuclease, RdgC; Region: RdgC; cl01122 177416002936 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 177416002937 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 177416002938 active site residue [active] 177416002939 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 177416002940 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 177416002941 S1 domain; Region: S1_2; pfam13509 177416002942 S1 domain; Region: S1_2; pfam13509 177416002943 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 177416002944 Part of AAA domain; Region: AAA_19; pfam13245 177416002945 AAA domain; Region: AAA_14; pfam13173 177416002946 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl19914 177416002947 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 177416002948 Aminomethyltransferase folate-binding domain; Region: GCV_T; cl01893 177416002949 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 177416002950 Isochorismatase family; Region: Isochorismatase; pfam00857 177416002951 catalytic triad [active] 177416002952 conserved cis-peptide bond; other site 177416002953 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 177416002954 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 177416002955 catalytic triad [active] 177416002956 conserved cis-peptide bond; other site 177416002957 transaldolase-like protein; Provisional; Region: PTZ00411 177416002958 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 177416002959 active site 177416002960 dimer interface [polypeptide binding]; other site 177416002961 catalytic residue [active] 177416002962 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 177416002963 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 177416002964 interface (dimer of trimers) [polypeptide binding]; other site 177416002965 Substrate-binding/catalytic site; other site 177416002966 Zn-binding sites [ion binding]; other site 177416002967 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177416002968 Outer membrane efflux protein; Region: OEP; pfam02321 177416002969 Outer membrane efflux protein; Region: OEP; pfam02321 177416002970 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 177416002971 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 177416002972 motif 1; other site 177416002973 active site 177416002974 motif 2; other site 177416002975 motif 3; other site 177416002976 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 177416002977 DHHA1 domain; Region: DHHA1; pfam02272 177416002978 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 177416002979 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 177416002980 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 177416002981 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 177416002982 catalytic residues [active] 177416002983 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 177416002984 SelR domain; Region: SelR; cl15841 177416002985 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 177416002986 TspO/MBR family; Region: TspO_MBR; pfam03073 177416002987 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 177416002988 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 177416002989 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 177416002990 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 177416002991 active site 177416002992 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 177416002993 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416002994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416002995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416002996 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416002997 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 177416002998 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 177416002999 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 177416003000 DNA binding residues [nucleotide binding] 177416003001 Src Homology 3 domain superfamily; Region: SH3; cl17036 177416003002 peptide ligand binding site [polypeptide binding]; other site 177416003003 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 177416003004 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 177416003005 Protein export membrane protein; Region: SecD_SecF; pfam02355 177416003006 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 177416003007 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 177416003008 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 177416003009 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 177416003010 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 177416003011 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 177416003012 catalytic triad [active] 177416003013 conserved cis-peptide bond; other site 177416003014 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177416003015 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 177416003016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416003017 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 177416003018 dimerization interface [polypeptide binding]; other site 177416003019 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 177416003020 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 177416003021 Protein of unknown function (DUF3281); Region: DUF3281; pfam11685 177416003022 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 177416003023 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 177416003024 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 177416003025 Walker A/P-loop; other site 177416003026 ATP binding site [chemical binding]; other site 177416003027 Q-loop/lid; other site 177416003028 ABC transporter signature motif; other site 177416003029 Walker B; other site 177416003030 D-loop; other site 177416003031 H-loop/switch region; other site 177416003032 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 177416003033 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 177416003034 putative PBP binding loops; other site 177416003035 dimer interface [polypeptide binding]; other site 177416003036 ABC-ATPase subunit interface; other site 177416003037 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 177416003038 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177416003039 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 177416003040 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 177416003041 active site residue [active] 177416003042 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 177416003043 active site residue [active] 177416003044 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 177416003045 homotrimer interaction site [polypeptide binding]; other site 177416003046 zinc binding site [ion binding]; other site 177416003047 CDP-binding sites; other site 177416003048 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416003049 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177416003050 cyanophycin synthetase; Provisional; Region: PRK14016 177416003051 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416003052 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 177416003053 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 177416003054 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 177416003055 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 177416003056 putative MPT binding site; other site 177416003057 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 177416003058 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 177416003059 active site 177416003060 catalytic site [active] 177416003061 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 177416003062 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 177416003063 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 177416003064 Walker A motif; other site 177416003065 ATP binding site [chemical binding]; other site 177416003066 Walker B motif; other site 177416003067 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 177416003068 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177416003069 Succinate dehydrogenase/Fumarate reductase transmembrane subunit; Region: Sdh_cyt; pfam01127 177416003070 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 177416003071 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 177416003072 ferrochelatase; Reviewed; Region: hemH; PRK00035 177416003073 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 177416003074 C-terminal domain interface [polypeptide binding]; other site 177416003075 active site 177416003076 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 177416003077 active site 177416003078 N-terminal domain interface [polypeptide binding]; other site 177416003079 Homeodomain-like domain; Region: HTH_23; cl17451 177416003080 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003081 ChaB; Region: ChaB; cl01887 177416003082 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 177416003083 Flavoprotein; Region: Flavoprotein; cl19190 177416003084 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 177416003085 benzoate transport; Region: 2A0115; TIGR00895 177416003086 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 177416003087 putative substrate translocation pore; other site 177416003088 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 177416003089 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 177416003090 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 177416003091 Proline dehydrogenase; Region: Pro_dh; pfam01619 177416003092 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 177416003093 Glutamate binding site [chemical binding]; other site 177416003094 NAD binding site [chemical binding]; other site 177416003095 catalytic residues [active] 177416003096 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 177416003097 NAD(P) binding site [chemical binding]; other site 177416003098 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 177416003099 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 177416003100 active site 177416003101 dimer interface [polypeptide binding]; other site 177416003102 metal binding site [ion binding]; metal-binding site 177416003103 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 177416003104 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 177416003105 ADP binding site [chemical binding]; other site 177416003106 magnesium binding site [ion binding]; other site 177416003107 putative shikimate binding site; other site 177416003108 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 177416003109 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 177416003110 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 177416003111 Pilus assembly protein, PilP; Region: PilP; cl19831 177416003112 Pilus assembly protein, PilO; Region: PilO; cl01234 177416003113 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 177416003114 adenylate kinase; Reviewed; Region: adk; PRK00279 177416003115 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 177416003116 AMP-binding site [chemical binding]; other site 177416003117 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 177416003118 GTPase Era; Reviewed; Region: era; PRK00089 177416003119 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 177416003120 G1 box; other site 177416003121 GTP/Mg2+ binding site [chemical binding]; other site 177416003122 Switch I region; other site 177416003123 G2 box; other site 177416003124 Switch II region; other site 177416003125 G3 box; other site 177416003126 G4 box; other site 177416003127 G5 box; other site 177416003128 KH domain; Region: KH_2; pfam07650 177416003129 aspartate aminotransferase; Provisional; Region: PRK05764 177416003130 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 177416003131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416003132 homodimer interface [polypeptide binding]; other site 177416003133 catalytic residue [active] 177416003134 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 177416003135 putative active site [active] 177416003136 putative dimer interface [polypeptide binding]; other site 177416003137 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 177416003138 Glycoprotease family; Region: Peptidase_M22; pfam00814 177416003139 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 177416003140 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 177416003141 active site 177416003142 dimer interface [polypeptide binding]; other site 177416003143 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 177416003144 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 177416003145 GTP/Mg2+ binding site [chemical binding]; other site 177416003146 G4 box; other site 177416003147 G5 box; other site 177416003148 G1 box; other site 177416003149 Switch I region; other site 177416003150 G2 box; other site 177416003151 G3 box; other site 177416003152 Switch II region; other site 177416003153 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 177416003154 Sel1-like repeats; Region: SEL1; smart00671 177416003155 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 177416003156 Sel1 repeat; Region: Sel1; pfam08238 177416003157 HsdM N-terminal domain; Region: HsdM_N; pfam12161 177416003158 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 177416003159 Methyltransferase domain; Region: Methyltransf_26; pfam13659 177416003160 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 177416003161 DNA-binding site [nucleotide binding]; DNA binding site 177416003162 RNA-binding motif; other site 177416003163 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 177416003164 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 177416003165 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 177416003166 G1 box; other site 177416003167 putative GEF interaction site [polypeptide binding]; other site 177416003168 GTP/Mg2+ binding site [chemical binding]; other site 177416003169 Switch I region; other site 177416003170 G2 box; other site 177416003171 G3 box; other site 177416003172 Switch II region; other site 177416003173 G4 box; other site 177416003174 G5 box; other site 177416003175 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 177416003176 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 177416003177 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 177416003178 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 177416003179 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 177416003180 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 177416003181 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 177416003182 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 177416003183 putative coenzyme Q binding site [chemical binding]; other site 177416003184 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 177416003185 SmpB-tmRNA interface; other site 177416003186 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 177416003187 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 177416003188 Ligand Binding Site [chemical binding]; other site 177416003189 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 177416003190 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 177416003191 generic binding surface II; other site 177416003192 generic binding surface I; other site 177416003193 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 177416003194 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 177416003195 metal binding site [ion binding]; metal-binding site 177416003196 dimer interface [polypeptide binding]; other site 177416003197 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 177416003198 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 177416003199 metabolite-proton symporter; Region: 2A0106; TIGR00883 177416003200 putative substrate translocation pore; other site 177416003201 glutamate racemase; Provisional; Region: PRK00865 177416003202 Nuclease-related domain; Region: NERD; pfam08378 177416003203 excinuclease ABC subunit B; Provisional; Region: PRK05298 177416003204 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 177416003205 ATP binding site [chemical binding]; other site 177416003206 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 177416003207 nucleotide binding region [chemical binding]; other site 177416003208 ATP-binding site [chemical binding]; other site 177416003209 Ultra-violet resistance protein B; Region: UvrB; pfam12344 177416003210 UvrB/uvrC motif; Region: UVR; pfam02151 177416003211 exonuclease I; Provisional; Region: sbcB; PRK11779 177416003212 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 177416003213 active site 177416003214 catalytic site [active] 177416003215 substrate binding site [chemical binding]; other site 177416003216 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 177416003217 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 177416003218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177416003219 NAD(P) binding site [chemical binding]; other site 177416003220 active site 177416003221 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177416003222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416003223 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 177416003224 putative effector binding pocket; other site 177416003225 dimerization interface [polypeptide binding]; other site 177416003226 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 177416003227 Predicted membrane protein [Function unknown]; Region: COG1289 177416003228 reticulocyte binding/rhoptry protein; Region: 235kDa-fam; TIGR01612 177416003229 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 177416003230 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 177416003231 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 177416003232 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 177416003233 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 177416003234 tetramer (dimer of dimers) interface [polypeptide binding]; other site 177416003235 active site 177416003236 dimer interface [polypeptide binding]; other site 177416003237 Homeodomain-like domain; Region: HTH_23; cl17451 177416003238 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003239 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 177416003240 dimer interface [polypeptide binding]; other site 177416003241 active site 177416003242 metal binding site [ion binding]; metal-binding site 177416003243 glutathione binding site [chemical binding]; other site 177416003244 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 177416003245 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 177416003246 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 177416003247 active site 177416003248 motif I; other site 177416003249 motif II; other site 177416003250 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 177416003251 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 177416003252 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 177416003253 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 177416003254 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 177416003255 Squalene epoxidase; Region: SE; cl17314 177416003256 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 177416003257 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 177416003258 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 177416003259 BolA-like protein; Region: BolA; cl00386 177416003260 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 177416003261 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 177416003262 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 177416003263 Recombination protein O N terminal; Region: RecO_N; pfam11967 177416003264 Recombination protein O C terminal; Region: RecO_C; pfam02565 177416003265 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 177416003266 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 177416003267 catalytic residue [active] 177416003268 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 177416003269 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 177416003270 homodimer interface [polypeptide binding]; other site 177416003271 oligonucleotide binding site [chemical binding]; other site 177416003272 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 177416003273 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 177416003274 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 177416003275 dimerization interface [polypeptide binding]; other site 177416003276 active site 177416003277 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 177416003278 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 177416003279 ligand binding site [chemical binding]; other site 177416003280 NAD binding site [chemical binding]; other site 177416003281 tetramer interface [polypeptide binding]; other site 177416003282 catalytic site [active] 177416003283 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 177416003284 L-serine binding site [chemical binding]; other site 177416003285 ACT domain interface; other site 177416003286 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 177416003287 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 177416003288 Ligand Binding Site [chemical binding]; other site 177416003289 TilS substrate C-terminal domain; Region: TilS_C; smart00977 177416003290 Homeodomain-like domain; Region: HTH_23; cl17451 177416003291 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003292 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 177416003293 putative substrate translocation pore; other site 177416003294 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 177416003295 active site 177416003296 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 177416003297 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177416003298 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 177416003299 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 177416003300 Ligand binding site; other site 177416003301 metal-binding site 177416003302 hypothetical protein; Provisional; Region: PRK05255 177416003303 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 177416003304 dimer interface [polypeptide binding]; other site 177416003305 active site 177416003306 glycine-pyridoxal phosphate binding site [chemical binding]; other site 177416003307 folate binding site [chemical binding]; other site 177416003308 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 177416003309 FAD binding domain; Region: FAD_binding_4; pfam01565 177416003310 Berberine and berberine like; Region: BBE; pfam08031 177416003311 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 177416003312 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 177416003313 TPR motif; other site 177416003314 binding surface 177416003315 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 177416003316 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 177416003317 RNA binding surface [nucleotide binding]; other site 177416003318 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 177416003319 active site 177416003320 hypothetical protein; Provisional; Region: PRK10356 177416003321 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 177416003322 Permease; Region: Permease; pfam02405 177416003323 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 177416003324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416003325 Walker A/P-loop; other site 177416003326 ATP binding site [chemical binding]; other site 177416003327 Q-loop/lid; other site 177416003328 ABC transporter signature motif; other site 177416003329 Walker B; other site 177416003330 D-loop; other site 177416003331 H-loop/switch region; other site 177416003332 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 177416003333 mce related protein; Region: MCE; pfam02470 177416003334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 177416003335 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 177416003336 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 177416003337 POT family; Region: PTR2; cl17359 177416003338 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 177416003339 putative substrate translocation pore; other site 177416003340 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 177416003341 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 177416003342 acyl-activating enzyme (AAE) consensus motif; other site 177416003343 putative AMP binding site [chemical binding]; other site 177416003344 putative active site [active] 177416003345 putative CoA binding site [chemical binding]; other site 177416003346 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 177416003347 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 177416003348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 177416003349 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 177416003350 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 177416003351 putative substrate translocation pore; other site 177416003352 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 177416003353 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177416003354 HlyD family secretion protein; Region: HlyD_3; pfam13437 177416003355 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 177416003356 Outer membrane efflux protein; Region: OEP; pfam02321 177416003357 Outer membrane efflux protein; Region: OEP; pfam02321 177416003358 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 177416003359 homodimer interface [polypeptide binding]; other site 177416003360 NAD binding pocket [chemical binding]; other site 177416003361 ATP binding pocket [chemical binding]; other site 177416003362 Mg binding site [ion binding]; other site 177416003363 active-site loop [active] 177416003364 Homeodomain-like domain; Region: HTH_23; cl17451 177416003365 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003366 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; cl19952 177416003367 Homeodomain-like domain; Region: HTH_23; cl17451 177416003368 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003369 Pirin-related protein [General function prediction only]; Region: COG1741 177416003370 Pirin; Region: Pirin; pfam02678 177416003371 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177416003372 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416003373 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 177416003374 putative effector binding pocket; other site 177416003375 dimerization interface [polypeptide binding]; other site 177416003376 chaperone protein DnaJ; Provisional; Region: PRK10767 177416003377 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 177416003378 HSP70 interaction site [polypeptide binding]; other site 177416003379 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 177416003380 substrate binding site [polypeptide binding]; other site 177416003381 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 177416003382 Zn binding sites [ion binding]; other site 177416003383 dimer interface [polypeptide binding]; other site 177416003384 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 177416003385 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 177416003386 nucleotide binding site [chemical binding]; other site 177416003387 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 177416003388 dimer interface [polypeptide binding]; other site 177416003389 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 177416003390 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 177416003391 MltA specific insert domain; Region: MltA; smart00925 177416003392 3D domain; Region: 3D; pfam06725 177416003393 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 177416003394 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 177416003395 23S rRNA interface [nucleotide binding]; other site 177416003396 L3 interface [polypeptide binding]; other site 177416003397 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 177416003398 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 177416003399 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 177416003400 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 177416003401 Na binding site [ion binding]; other site 177416003402 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 177416003403 RNA/DNA hybrid binding site [nucleotide binding]; other site 177416003404 active site 177416003405 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 177416003406 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 177416003407 Phosphoenolpyruvate-dependent sugar phosphotransferase system, EIIA 2; Region: PTS_EIIA_2; pfam00359 177416003408 active site 177416003409 phosphorylation site [posttranslational modification] 177416003410 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 177416003411 30S subunit binding site; other site 177416003412 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 177416003413 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 177416003414 trmE is a tRNA modification GTPase; Region: trmE; cd04164 177416003415 G1 box; other site 177416003416 GTP/Mg2+ binding site [chemical binding]; other site 177416003417 Switch I region; other site 177416003418 G2 box; other site 177416003419 Switch II region; other site 177416003420 G3 box; other site 177416003421 G4 box; other site 177416003422 G5 box; other site 177416003423 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 177416003424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177416003425 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 177416003426 putative DNA binding site [nucleotide binding]; other site 177416003427 putative Zn2+ binding site [ion binding]; other site 177416003428 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 177416003429 dimerization interface [polypeptide binding]; other site 177416003430 cysteine synthase; Region: PLN02565 177416003431 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 177416003432 dimer interface [polypeptide binding]; other site 177416003433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416003434 catalytic residue [active] 177416003435 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 177416003436 Similar to Q9KQ90 Hypothetical protein VC2111 from Vibrio cholerae (175 aa). FASTA: opt: 309 Z-score: 410.6 E(): 5.6e-15 Smith-Waterman score: 309; 41.912 identity in 136 aa overlap. ORF ftt1289 177416003437 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 177416003438 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 177416003439 active site 177416003440 HIGH motif; other site 177416003441 KMSKS motif; other site 177416003442 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 177416003443 tRNA binding surface [nucleotide binding]; other site 177416003444 anticodon binding site; other site 177416003445 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 177416003446 dimer interface [polypeptide binding]; other site 177416003447 putative tRNA-binding site [nucleotide binding]; other site 177416003448 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 177416003449 D-galactonate transporter; Region: 2A0114; TIGR00893 177416003450 putative substrate translocation pore; other site 177416003451 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 177416003452 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 177416003453 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 177416003454 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 177416003455 intracellular septation protein A; Reviewed; Region: PRK00259 177416003456 Glucokinase; Region: Glucokinase; pfam02685 177416003457 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 177416003458 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 177416003459 S-adenosylmethionine binding site [chemical binding]; other site 177416003460 SCP-2 sterol transfer family; Region: SCP2; cl01225 177416003461 ABC1 family; Region: ABC1; cl17513 177416003462 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 177416003463 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 177416003464 nucleotide binding site/active site [active] 177416003465 HIT family signature motif; other site 177416003466 catalytic residue [active] 177416003467 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 177416003468 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 177416003469 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 177416003470 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 177416003471 FAD binding domain; Region: FAD_binding_4; cl19922 177416003472 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 177416003473 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 177416003474 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 177416003475 putative active site [active] 177416003476 GTP-binding protein Der; Reviewed; Region: PRK00093 177416003477 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 177416003478 G1 box; other site 177416003479 GTP/Mg2+ binding site [chemical binding]; other site 177416003480 Switch I region; other site 177416003481 G2 box; other site 177416003482 Switch II region; other site 177416003483 G3 box; other site 177416003484 G4 box; other site 177416003485 G5 box; other site 177416003486 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 177416003487 G1 box; other site 177416003488 GTP/Mg2+ binding site [chemical binding]; other site 177416003489 Switch I region; other site 177416003490 G2 box; other site 177416003491 G3 box; other site 177416003492 Switch II region; other site 177416003493 G4 box; other site 177416003494 G5 box; other site 177416003495 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 177416003496 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 177416003497 FtsH Extracellular; Region: FtsH_ext; pfam06480 177416003498 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 177416003499 Walker A motif; other site 177416003500 ATP binding site [chemical binding]; other site 177416003501 Walker B motif; other site 177416003502 arginine finger; other site 177416003503 Peptidase family M41; Region: Peptidase_M41; pfam01434 177416003504 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 177416003505 putative transporter; Provisional; Region: PRK10504 177416003506 putative substrate translocation pore; other site 177416003507 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 177416003508 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177416003509 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 177416003510 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 177416003511 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 177416003512 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 177416003513 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 177416003514 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 177416003515 Type II transport protein GspH; Region: GspH; pfam12019 177416003516 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 177416003517 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 177416003518 active site 177416003519 dimer interface [polypeptide binding]; other site 177416003520 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 177416003521 dimer interface [polypeptide binding]; other site 177416003522 active site 177416003523 Thiamine pyrophosphokinase; Region: TPK; cd07995 177416003524 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 177416003525 active site 177416003526 dimerization interface [polypeptide binding]; other site 177416003527 thiamine binding site [chemical binding]; other site 177416003528 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 177416003529 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 177416003530 active site 177416003531 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 177416003532 multifunctional aminopeptidase A; Provisional; Region: PRK00913 177416003533 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 177416003534 interface (dimer of trimers) [polypeptide binding]; other site 177416003535 Substrate-binding/catalytic site; other site 177416003536 Zn-binding sites [ion binding]; other site 177416003537 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 177416003538 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 177416003539 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 177416003540 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 177416003541 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 177416003542 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 177416003543 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 177416003544 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 177416003545 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 177416003546 Predicted membrane protein [Function unknown]; Region: COG2860 177416003547 UPF0126 domain; Region: UPF0126; pfam03458 177416003548 UPF0126 domain; Region: UPF0126; pfam03458 177416003549 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 177416003550 active site 177416003551 dinuclear metal binding site [ion binding]; other site 177416003552 dimerization interface [polypeptide binding]; other site 177416003553 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 177416003554 Cytidine deaminase [Nucleotide transport and metabolism]; Region: Cdd; COG0295 177416003555 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 177416003556 active site 177416003557 catalytic motif [active] 177416003558 Zn binding site [ion binding]; other site 177416003559 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 177416003560 FAD binding domain; Region: FAD_binding_4; pfam01565 177416003561 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 177416003562 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 177416003563 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl19102 177416003564 phosphoglyceromutase; Provisional; Region: PRK05434 177416003565 seryl-tRNA synthetase; Provisional; Region: PRK05431 177416003566 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 177416003567 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 177416003568 dimer interface [polypeptide binding]; other site 177416003569 active site 177416003570 motif 1; other site 177416003571 motif 2; other site 177416003572 motif 3; other site 177416003573 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 177416003574 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 177416003575 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 177416003576 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 177416003577 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 177416003578 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 177416003579 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177416003580 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416003581 Walker A/P-loop; other site 177416003582 ATP binding site [chemical binding]; other site 177416003583 Q-loop/lid; other site 177416003584 ABC transporter signature motif; other site 177416003585 Walker B; other site 177416003586 D-loop; other site 177416003587 H-loop/switch region; other site 177416003588 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 177416003589 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 177416003590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 177416003591 Walker A/P-loop; other site 177416003592 ATP binding site [chemical binding]; other site 177416003593 Q-loop/lid; other site 177416003594 ABC transporter signature motif; other site 177416003595 Walker B; other site 177416003596 D-loop; other site 177416003597 H-loop/switch region; other site 177416003598 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 177416003599 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 177416003600 homotrimer interaction site [polypeptide binding]; other site 177416003601 putative active site [active] 177416003602 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 177416003603 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 177416003604 Sulfate transporter family; Region: Sulfate_transp; pfam00916 177416003605 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 177416003606 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416003607 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416003608 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416003609 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416003610 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 177416003611 Peptidase family M50; Region: Peptidase_M50; pfam02163 177416003612 active site 177416003613 putative substrate binding region [chemical binding]; other site 177416003614 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 177416003615 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 177416003616 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 177416003617 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 177416003618 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 177416003619 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 177416003620 Intracellular growth locus C protein; Region: IglC; pfam11550 177416003621 Protein of unknown function (DUF877); Region: DUF877; pfam05943 177416003622 type VI secretion protein, VC_A0107 family; Region: VI_chp_5; TIGR03358 177416003623 Homeodomain-like domain; Region: HTH_23; cl17451 177416003624 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003625 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 177416003626 intersubunit interface [polypeptide binding]; other site 177416003627 active site 177416003628 zinc binding site [ion binding]; other site 177416003629 Na+ binding site [ion binding]; other site 177416003630 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; cd00288 177416003631 pyruvate kinase; Provisional; Region: PRK05826 177416003632 domain interfaces; other site 177416003633 active site 177416003634 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 177416003635 substrate binding site [chemical binding]; other site 177416003636 hinge regions; other site 177416003637 ADP binding site [chemical binding]; other site 177416003638 catalytic site [active] 177416003639 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 177416003640 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 177416003641 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 177416003642 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 177416003643 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 177416003644 TPP-binding site [chemical binding]; other site 177416003645 dimer interface [polypeptide binding]; other site 177416003646 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 177416003647 PYR/PP interface [polypeptide binding]; other site 177416003648 dimer interface [polypeptide binding]; other site 177416003649 TPP binding site [chemical binding]; other site 177416003650 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 177416003651 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 177416003652 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 177416003653 putative phosphate acyltransferase; Provisional; Region: PRK05331 177416003654 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 177416003655 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 177416003656 dimer interface [polypeptide binding]; other site 177416003657 active site 177416003658 CoA binding pocket [chemical binding]; other site 177416003659 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 177416003660 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 177416003661 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 177416003662 NAD(P) binding site [chemical binding]; other site 177416003663 homotetramer interface [polypeptide binding]; other site 177416003664 homodimer interface [polypeptide binding]; other site 177416003665 active site 177416003666 acyl carrier protein; Provisional; Region: acpP; PRK00982 177416003667 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 177416003668 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 177416003669 dimer interface [polypeptide binding]; other site 177416003670 active site 177416003671 Uncharacterized conserved protein [Function unknown]; Region: COG4121 177416003672 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 177416003673 active site 177416003674 dimerization interface [polypeptide binding]; other site 177416003675 16S rRNA methyltransferase B; Provisional; Region: PRK10901 177416003676 NusB family; Region: NusB; pfam01029 177416003677 putative RNA binding site [nucleotide binding]; other site 177416003678 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 177416003679 S-adenosylmethionine binding site [chemical binding]; other site 177416003680 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 177416003681 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 177416003682 Homeodomain-like domain; Region: HTH_23; cl17451 177416003683 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003684 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 177416003685 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 177416003686 nucleotide binding pocket [chemical binding]; other site 177416003687 K-X-D-G motif; other site 177416003688 catalytic site [active] 177416003689 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 177416003690 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 177416003691 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 177416003692 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 177416003693 Dimer interface [polypeptide binding]; other site 177416003694 BRCT sequence motif; other site 177416003695 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 177416003696 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 177416003697 active site 177416003698 oligomerization interface [polypeptide binding]; other site 177416003699 metal binding site [ion binding]; metal-binding site 177416003700 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 177416003701 active site 177416003702 nucleotide binding site [chemical binding]; other site 177416003703 HIGH motif; other site 177416003704 KMSKS motif; other site 177416003705 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 177416003706 tetramerization interface [polypeptide binding]; other site 177416003707 active site 177416003708 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 177416003709 nucleotide binding site [chemical binding]; other site 177416003710 Type III pantothenate kinase; Region: Pan_kinase; cl17198 177416003711 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 177416003712 AAA domain; Region: AAA_30; pfam13604 177416003713 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 177416003714 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 177416003715 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 177416003716 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 177416003717 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 177416003718 Divergent AAA domain; Region: AAA_4; pfam04326 177416003719 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 177416003720 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 177416003721 putative DNA binding site [nucleotide binding]; other site 177416003722 putative Zn2+ binding site [ion binding]; other site 177416003723 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 177416003724 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 177416003725 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177416003726 EamA-like transporter family; Region: EamA; pfam00892 177416003727 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 177416003728 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 177416003729 non-specific DNA binding site [nucleotide binding]; other site 177416003730 salt bridge; other site 177416003731 sequence-specific DNA binding site [nucleotide binding]; other site 177416003732 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 177416003733 Catalytic site [active] 177416003734 FeoA domain; Region: FeoA; cl00838 177416003735 cell division protein FtsN; Region: ftsN; TIGR02223 177416003736 Sporulation related domain; Region: SPOR; pfam05036 177416003737 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 177416003738 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 177416003739 intersubunit interface [polypeptide binding]; other site 177416003740 ATP12 chaperone protein; Region: ATP12; cl02228 177416003741 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 177416003742 active site 177416003743 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 177416003744 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 177416003745 prolyl-tRNA synthetase; Provisional; Region: PRK09194 177416003746 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 177416003747 dimer interface [polypeptide binding]; other site 177416003748 motif 1; other site 177416003749 active site 177416003750 motif 2; other site 177416003751 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 177416003752 putative deacylase active site [active] 177416003753 motif 3; other site 177416003754 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 177416003755 anticodon binding site; other site 177416003756 methionine aminotransferase; Validated; Region: PRK09082 177416003757 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 177416003758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416003759 homodimer interface [polypeptide binding]; other site 177416003760 catalytic residue [active] 177416003761 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 177416003762 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 177416003763 active site 177416003764 catalytic triad [active] 177416003765 dimer interface [polypeptide binding]; other site 177416003766 transcription antitermination factor NusB; Region: nusB; TIGR01951 177416003767 putative RNA binding site [nucleotide binding]; other site 177416003768 hypothetical protein; Provisional; Region: PRK05170 177416003769 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 177416003770 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 177416003771 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177416003772 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 177416003773 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 177416003774 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177416003775 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 177416003776 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; cl00125 177416003777 active site residue [active] 177416003778 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 177416003779 active site residue [active] 177416003780 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 177416003781 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 177416003782 putative DNA binding site [nucleotide binding]; other site 177416003783 putative Zn2+ binding site [ion binding]; other site 177416003784 Homeodomain-like domain; Region: HTH_23; cl17451 177416003785 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003786 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 177416003787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 177416003788 Coenzyme A binding pocket [chemical binding]; other site 177416003789 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 177416003790 ATP-NAD kinase; Region: NAD_kinase; cl01255 177416003791 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 177416003792 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 177416003793 Ligand binding site; other site 177416003794 Putative Catalytic site; other site 177416003795 DXD motif; other site 177416003796 inner membrane transport permease; Provisional; Region: PRK15066 177416003797 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 177416003798 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 177416003799 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 177416003800 Walker A/P-loop; other site 177416003801 ATP binding site [chemical binding]; other site 177416003802 Q-loop/lid; other site 177416003803 ABC transporter signature motif; other site 177416003804 Walker B; other site 177416003805 D-loop; other site 177416003806 H-loop/switch region; other site 177416003807 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416003808 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416003809 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416003810 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416003811 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 177416003812 active site 177416003813 Ferritin-like domain; Region: Ferritin; pfam00210 177416003814 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 177416003815 dinuclear metal binding motif [ion binding]; other site 177416003816 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 177416003817 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177416003818 dimer interface [polypeptide binding]; other site 177416003819 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 177416003820 recombination factor protein RarA; Provisional; Region: PRK14700 177416003821 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 177416003822 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl19483 177416003823 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 177416003824 catalytic residues [active] 177416003825 transcription termination factor Rho; Provisional; Region: rho; PRK09376 177416003826 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 177416003827 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 177416003828 RNA binding site [nucleotide binding]; other site 177416003829 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 177416003830 multimer interface [polypeptide binding]; other site 177416003831 Walker A motif; other site 177416003832 ATP binding site [chemical binding]; other site 177416003833 Walker B motif; other site 177416003834 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 177416003835 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 177416003836 active site 177416003837 substrate binding site [chemical binding]; other site 177416003838 metal binding site [ion binding]; metal-binding site 177416003839 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 177416003840 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 177416003841 Substrate binding site; other site 177416003842 Cupin domain; Region: Cupin_2; cl17218 177416003843 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 177416003844 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 177416003845 NAD binding site [chemical binding]; other site 177416003846 substrate binding site [chemical binding]; other site 177416003847 homodimer interface [polypeptide binding]; other site 177416003848 active site 177416003849 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 177416003850 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 177416003851 substrate binding site; other site 177416003852 tetramer interface; other site 177416003853 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 177416003854 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 177416003855 active site 177416003856 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 177416003857 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 177416003858 hypothetical protein; Provisional; Region: PRK07579 177416003859 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 177416003860 active site 177416003861 cosubstrate binding site; other site 177416003862 substrate binding site [chemical binding]; other site 177416003863 catalytic site [active] 177416003864 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 177416003865 inhibitor-cofactor binding pocket; inhibition site 177416003866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416003867 catalytic residue [active] 177416003868 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 177416003869 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 177416003870 active site 177416003871 dimer interface [polypeptide binding]; other site 177416003872 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 177416003873 Ligand Binding Site [chemical binding]; other site 177416003874 Molecular Tunnel; other site 177416003875 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177416003876 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 177416003877 putative ADP-binding pocket [chemical binding]; other site 177416003878 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 177416003879 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 177416003880 NAD binding site [chemical binding]; other site 177416003881 substrate binding site [chemical binding]; other site 177416003882 homodimer interface [polypeptide binding]; other site 177416003883 active site 177416003884 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 177416003885 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 177416003886 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 177416003887 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 177416003888 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 177416003889 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 177416003890 putative ADP-binding pocket [chemical binding]; other site 177416003891 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 177416003892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177416003893 NAD(P) binding site [chemical binding]; other site 177416003894 active site 177416003895 Bacterial sugar transferase; Region: Bac_transf; pfam02397 177416003896 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 177416003897 CoA binding domain; Region: CoA_binding; cl17356 177416003898 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 177416003899 NAD(P) binding site [chemical binding]; other site 177416003900 homodimer interface [polypeptide binding]; other site 177416003901 substrate binding site [chemical binding]; other site 177416003902 active site 177416003903 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416003904 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416003905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416003906 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416003907 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 177416003908 L-aspartate oxidase; Provisional; Region: PRK06175 177416003909 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 177416003910 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 177416003911 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 177416003912 dimerization interface [polypeptide binding]; other site 177416003913 active site 177416003914 quinolinate synthetase; Provisional; Region: PRK09375 177416003915 Guanylate kinase; Region: Guanylate_kin; pfam00625 177416003916 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 177416003917 catalytic site [active] 177416003918 G-X2-G-X-G-K; other site 177416003919 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 177416003920 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 177416003921 ATP binding site [chemical binding]; other site 177416003922 Mg++ binding site [ion binding]; other site 177416003923 motif III; other site 177416003924 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 177416003925 nucleotide binding region [chemical binding]; other site 177416003926 ATP-binding site [chemical binding]; other site 177416003927 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 177416003928 putative RNA binding site [nucleotide binding]; other site 177416003929 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 177416003930 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 177416003931 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 177416003932 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 177416003933 putative substrate translocation pore; other site 177416003934 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 177416003935 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 177416003936 putative substrate translocation pore; other site 177416003937 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 177416003938 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 177416003939 dimer interface [polypeptide binding]; other site 177416003940 active site 177416003941 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 177416003942 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 177416003943 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 177416003944 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 177416003945 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 177416003946 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 177416003947 Ligand binding site; other site 177416003948 oligomer interface; other site 177416003949 Uncharacterized conserved protein [Function unknown]; Region: COG2835 177416003950 Homeodomain-like domain; Region: HTH_23; cl17451 177416003951 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416003952 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 177416003953 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 177416003954 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 177416003955 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 177416003956 NAD binding site [chemical binding]; other site 177416003957 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 177416003958 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 177416003959 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 177416003960 E3 interaction surface; other site 177416003961 lipoyl attachment site [posttranslational modification]; other site 177416003962 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 177416003963 E3 interaction surface; other site 177416003964 lipoyl attachment site [posttranslational modification]; other site 177416003965 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 177416003966 E3 interaction surface; other site 177416003967 lipoyl attachment site [posttranslational modification]; other site 177416003968 e3 binding domain; Region: E3_binding; pfam02817 177416003969 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 177416003970 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 177416003971 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 177416003972 dimer interface [polypeptide binding]; other site 177416003973 TPP-binding site [chemical binding]; other site 177416003974 Uncharacterized conserved protein [Function unknown]; Region: COG1565 177416003975 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 177416003976 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 177416003977 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 177416003978 CoA-binding site [chemical binding]; other site 177416003979 ATP-binding [chemical binding]; other site 177416003980 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK00927 177416003981 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 177416003982 active site 177416003983 HIGH motif; other site 177416003984 dimer interface [polypeptide binding]; other site 177416003985 KMSKS motif; other site 177416003986 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 177416003987 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 177416003988 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 177416003989 putative active site [active] 177416003990 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 177416003991 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177416003992 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 177416003993 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 177416003994 MutS domain I; Region: MutS_I; pfam01624 177416003995 MutS domain III; Region: MutS_III; pfam05192 177416003996 MutS domain V; Region: MutS_V; pfam00488 177416003997 Walker A/P-loop; other site 177416003998 ATP binding site [chemical binding]; other site 177416003999 Q-loop/lid; other site 177416004000 ABC transporter signature motif; other site 177416004001 Walker B; other site 177416004002 D-loop; other site 177416004003 H-loop/switch region; other site 177416004004 preprotein translocase subunit SecB; Validated; Region: PRK05751 177416004005 SecA binding site; other site 177416004006 Preprotein binding site; other site 177416004007 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 177416004008 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177416004009 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 177416004010 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 177416004011 active site 177416004012 DNA binding site [nucleotide binding] 177416004013 Int/Topo IB signature motif; other site 177416004014 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 177416004015 S-adenosylmethionine binding site [chemical binding]; other site 177416004016 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 177416004017 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 177416004018 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 177416004019 HD domain; Region: HD_4; pfam13328 177416004020 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 177416004021 synthetase active site [active] 177416004022 NTP binding site [chemical binding]; other site 177416004023 metal binding site [ion binding]; metal-binding site 177416004024 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 177416004025 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177416004026 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 177416004027 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 177416004028 EamA-like transporter family; Region: EamA; pfam00892 177416004029 EamA-like transporter family; Region: EamA; pfam00892 177416004030 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 177416004031 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 177416004032 HSP70 interaction site [polypeptide binding]; other site 177416004033 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 177416004034 substrate binding site [polypeptide binding]; other site 177416004035 dimer interface [polypeptide binding]; other site 177416004036 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 177416004037 Uncharacterized conserved protein [Function unknown]; Region: COG0398 177416004038 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 177416004039 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 177416004040 DNA binding site [nucleotide binding] 177416004041 active site 177416004042 Amino acid permease; Region: AA_permease_2; pfam13520 177416004043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 177416004044 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 177416004045 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416004046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 177416004047 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 177416004048 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 177416004049 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 177416004050 ATP binding site [chemical binding]; other site 177416004051 putative Mg++ binding site [ion binding]; other site 177416004052 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 177416004053 nucleotide binding region [chemical binding]; other site 177416004054 ATP-binding site [chemical binding]; other site 177416004055 Helicase associated domain (HA2); Region: HA2; pfam04408 177416004056 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 177416004057 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 177416004058 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 177416004059 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 177416004060 catalytic residues [active] 177416004061 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 177416004062 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 177416004063 acyl-activating enzyme (AAE) consensus motif; other site 177416004064 putative AMP binding site [chemical binding]; other site 177416004065 putative active site [active] 177416004066 putative CoA binding site [chemical binding]; other site 177416004067 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 177416004068 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 177416004069 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 177416004070 active site 177416004071 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 177416004072 Acyl CoA binding protein; Region: ACBP; pfam00887 177416004073 acyl-CoA binding pocket [chemical binding]; other site 177416004074 CoA binding site [chemical binding]; other site 177416004075 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 177416004076 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 177416004077 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 177416004078 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 177416004079 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 177416004080 substrate binding site [chemical binding]; other site 177416004081 oxyanion hole (OAH) forming residues; other site 177416004082 trimer interface [polypeptide binding]; other site 177416004083 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 177416004084 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 177416004085 dimer interface [polypeptide binding]; other site 177416004086 active site 177416004087 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 177416004088 CoenzymeA binding site [chemical binding]; other site 177416004089 subunit interaction site [polypeptide binding]; other site 177416004090 PHB binding site; other site 177416004091 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 177416004092 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 177416004093 active site 177416004094 Amidinotransferase; Region: Amidinotransf; pfam02274 177416004095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 177416004096 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 177416004097 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 177416004098 hypothetical protein; Provisional; Region: PRK11281 177416004099 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177416004100 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 177416004101 active site 177416004102 phosphorylation site [posttranslational modification] 177416004103 intermolecular recognition site; other site 177416004104 dimerization interface [polypeptide binding]; other site 177416004105 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 177416004106 DNA binding site [nucleotide binding] 177416004107 Homeodomain-like domain; Region: HTH_23; cl17451 177416004108 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004109 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 177416004110 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 177416004111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 177416004112 NAD(P) binding site [chemical binding]; other site 177416004113 active site 177416004114 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 177416004115 Di-iron ligands [ion binding]; other site 177416004116 ribonuclease R; Region: RNase_R; TIGR02063 177416004117 RNB domain; Region: RNB; pfam00773 177416004118 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 177416004119 RNA binding site [nucleotide binding]; other site 177416004120 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 177416004121 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 177416004122 RNA binding site [nucleotide binding]; other site 177416004123 active site 177416004124 ribonuclease III; Reviewed; Region: rnc; PRK00102 177416004125 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 177416004126 dimerization interface [polypeptide binding]; other site 177416004127 active site 177416004128 metal binding site [ion binding]; metal-binding site 177416004129 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 177416004130 dsRNA binding site [nucleotide binding]; other site 177416004131 signal peptidase I; Provisional; Region: PRK10861 177416004132 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 177416004133 Catalytic site [active] 177416004134 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 177416004135 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 177416004136 active site 177416004137 phosphorylation site [posttranslational modification] 177416004138 intermolecular recognition site; other site 177416004139 dimerization interface [polypeptide binding]; other site 177416004140 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 177416004141 DNA binding site [nucleotide binding] 177416004142 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 177416004143 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 177416004144 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 177416004145 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 177416004146 active site 177416004147 dimerization interface [polypeptide binding]; other site 177416004148 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 177416004149 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 177416004150 Glycosyl transferases group 1; Region: Glycos_transf_1; cl19138 177416004151 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 177416004152 substrate binding pocket [chemical binding]; other site 177416004153 chain length determination region; other site 177416004154 substrate-Mg2+ binding site; other site 177416004155 catalytic residues [active] 177416004156 aspartate-rich region 1; other site 177416004157 active site lid residues [active] 177416004158 aspartate-rich region 2; other site 177416004159 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 177416004160 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 177416004161 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 177416004162 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 177416004163 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 177416004164 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 177416004165 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 177416004166 active site 177416004167 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 177416004168 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 177416004169 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 177416004170 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 177416004171 trimer interface [polypeptide binding]; other site 177416004172 active site 177416004173 UDP-GlcNAc binding site [chemical binding]; other site 177416004174 lipid binding site [chemical binding]; lipid-binding site 177416004175 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 177416004176 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 177416004177 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177416004178 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177416004179 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177416004180 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177416004181 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 177416004182 Surface antigen; Region: Bac_surface_Ag; pfam01103 177416004183 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 177416004184 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 177416004185 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 177416004186 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 177416004187 DNA gyrase subunit A; Validated; Region: PRK05560 177416004188 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 177416004189 CAP-like domain; other site 177416004190 active site 177416004191 primary dimer interface [polypeptide binding]; other site 177416004192 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177416004193 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177416004194 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177416004195 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177416004196 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177416004197 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 177416004198 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 177416004199 aromatic chitin/cellulose binding site residues [chemical binding]; other site 177416004200 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 177416004201 ligand binding site [chemical binding]; other site 177416004202 active site 177416004203 UGI interface [polypeptide binding]; other site 177416004204 catalytic site [active] 177416004205 Restriction endonuclease [Defense mechanisms]; Region: COG3587 177416004206 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 177416004207 ATP binding site [chemical binding]; other site 177416004208 putative Mg++ binding site [ion binding]; other site 177416004209 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 177416004210 GIY-YIG motif/motif A; other site 177416004211 putative active site [active] 177416004212 putative metal binding site [ion binding]; other site 177416004213 Homeodomain-like domain; Region: HTH_23; cl17451 177416004214 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004215 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 177416004216 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 177416004217 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 177416004218 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 177416004219 Methyltransferase domain; Region: Methyltransf_11; pfam08241 177416004220 VacJ like lipoprotein; Region: VacJ; cl01073 177416004221 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177416004222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416004223 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 177416004224 dimerization interface [polypeptide binding]; other site 177416004225 Homeodomain-like domain; Region: HTH_23; cl17451 177416004226 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004227 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 177416004228 Fumarase C-terminus; Region: Fumerase_C; pfam05683 177416004229 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 177416004230 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 177416004231 ssDNA binding site; other site 177416004232 generic binding surface II; other site 177416004233 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 177416004234 ATP binding site [chemical binding]; other site 177416004235 putative Mg++ binding site [ion binding]; other site 177416004236 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 177416004237 nucleotide binding region [chemical binding]; other site 177416004238 ATP-binding site [chemical binding]; other site 177416004239 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 177416004240 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 177416004241 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 177416004242 septum formation inhibitor; Reviewed; Region: minC; PRK04804 177416004243 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 177416004244 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 177416004245 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 177416004246 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 177416004247 P-loop; other site 177416004248 ADP binding residues [chemical binding]; other site 177416004249 Switch I; other site 177416004250 Switch II; other site 177416004251 cell division topological specificity factor MinE; Provisional; Region: PRK13990 177416004252 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 177416004253 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 177416004254 Walker A/P-loop; other site 177416004255 ATP binding site [chemical binding]; other site 177416004256 Q-loop/lid; other site 177416004257 ABC transporter signature motif; other site 177416004258 Walker B; other site 177416004259 D-loop; other site 177416004260 H-loop/switch region; other site 177416004261 Permease; Region: Permease; pfam02405 177416004262 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 177416004263 mce related protein; Region: MCE; pfam02470 177416004264 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 177416004265 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 177416004266 anti sigma factor interaction site; other site 177416004267 regulatory phosphorylation site [posttranslational modification]; other site 177416004268 BolA-like protein; Region: BolA; cl00386 177416004269 Homeodomain-like domain; Region: HTH_23; cl17451 177416004270 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004271 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 177416004272 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 177416004273 active site 177416004274 HIGH motif; other site 177416004275 KMSKS motif; other site 177416004276 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 177416004277 tRNA binding surface [nucleotide binding]; other site 177416004278 anticodon binding site; other site 177416004279 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 177416004280 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 177416004281 S-adenosylmethionine binding site [chemical binding]; other site 177416004282 Homeodomain-like domain; Region: HTH_23; cl17451 177416004283 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004284 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 177416004285 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177416004286 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 177416004287 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 177416004288 Domain of unknown function DUF21; Region: DUF21; pfam01595 177416004289 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 177416004290 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 177416004291 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 177416004292 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 177416004293 DXD motif; other site 177416004294 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 177416004295 Na binding site [ion binding]; other site 177416004296 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 177416004297 putative active site [active] 177416004298 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 177416004299 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 177416004300 lysine transporter; Provisional; Region: PRK10836 177416004301 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 177416004302 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 177416004303 active site 177416004304 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 177416004305 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 177416004306 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 177416004307 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 177416004308 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl19192 177416004309 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 177416004310 Cation transport protein; Region: TrkH; cl17365 177416004311 ProQ/FINO family; Region: ProQ; smart00945 177416004312 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 177416004313 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 177416004314 substrate binding [chemical binding]; other site 177416004315 active site 177416004316 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 177416004317 putative transporter; Provisional; Region: PRK03699 177416004318 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 177416004319 putative substrate translocation pore; other site 177416004320 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 177416004321 phosphate binding site [ion binding]; other site 177416004322 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 177416004323 active site 177416004324 dimer interface [polypeptide binding]; other site 177416004325 Chorismate mutase type II; Region: CM_2; smart00830 177416004326 SOUL heme-binding protein; Region: SOUL; pfam04832 177416004327 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177416004328 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416004329 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 177416004330 dimerization interface [polypeptide binding]; other site 177416004331 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 177416004332 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 177416004333 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 177416004334 HlyD family secretion protein; Region: HlyD_3; pfam13437 177416004335 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 177416004336 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 177416004337 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 177416004338 dihydroorotase; Reviewed; Region: PRK09236 177416004339 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 177416004340 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 177416004341 active site 177416004342 thiopurine S-methyltransferase; Reviewed; Region: PRK13256 177416004343 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 177416004344 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 177416004345 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 177416004346 catalytic site [active] 177416004347 subunit interface [polypeptide binding]; other site 177416004348 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 177416004349 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177416004350 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416004351 Carbamoyl-phosphate synthetase large chain, oligomerization domain; Region: CPSase_L_D3; pfam02787 177416004352 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177416004353 ATP-grasp domain; Region: ATP-grasp_4; cl17255 177416004354 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 177416004355 substrate binding site [chemical binding]; other site 177416004356 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 177416004357 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 177416004358 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 177416004359 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 177416004360 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 177416004361 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 177416004362 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 177416004363 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 177416004364 Homeodomain-like domain; Region: HTH_23; cl17451 177416004365 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004366 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 177416004367 catalytic motif [active] 177416004368 Zn binding site [ion binding]; other site 177416004369 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 177416004370 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 177416004371 Lumazine binding domain; Region: Lum_binding; pfam00677 177416004372 Lumazine binding domain; Region: Lum_binding; pfam00677 177416004373 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 177416004374 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 177416004375 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 177416004376 dimerization interface [polypeptide binding]; other site 177416004377 active site 177416004378 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 177416004379 homopentamer interface [polypeptide binding]; other site 177416004380 active site 177416004381 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 177416004382 active site 177416004383 catalytic residues [active] 177416004384 metal binding site [ion binding]; metal-binding site 177416004385 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 177416004386 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 177416004387 Ligand Binding Site [chemical binding]; other site 177416004388 GTP-binding protein LepA; Provisional; Region: PRK05433 177416004389 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 177416004390 G1 box; other site 177416004391 putative GEF interaction site [polypeptide binding]; other site 177416004392 GTP/Mg2+ binding site [chemical binding]; other site 177416004393 Switch I region; other site 177416004394 G2 box; other site 177416004395 G3 box; other site 177416004396 Switch II region; other site 177416004397 G4 box; other site 177416004398 G5 box; other site 177416004399 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 177416004400 Elongation Factor G, domain II; Region: EFG_II; pfam14492 177416004401 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 177416004402 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 177416004403 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 177416004404 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 177416004405 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 177416004406 dimer interface [polypeptide binding]; other site 177416004407 active site 177416004408 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 177416004409 putative substrate translocation pore; other site 177416004410 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 177416004411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 177416004412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 177416004413 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 177416004414 putative effector binding pocket; other site 177416004415 dimerization interface [polypeptide binding]; other site 177416004416 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 177416004417 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 177416004418 catalytic residue [active] 177416004419 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 177416004420 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 177416004421 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177416004422 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 177416004423 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 177416004424 putative FMN binding site [chemical binding]; other site 177416004425 Homeodomain-like domain; Region: HTH_23; cl17451 177416004426 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004427 hypothetical protein; Validated; Region: PRK02101 177416004428 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 177416004429 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 177416004430 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 177416004431 oligomerisation interface [polypeptide binding]; other site 177416004432 mobile loop; other site 177416004433 roof hairpin; other site 177416004434 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 177416004435 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 177416004436 ring oligomerisation interface [polypeptide binding]; other site 177416004437 ATP/Mg binding site [chemical binding]; other site 177416004438 stacking interactions; other site 177416004439 hinge regions; other site 177416004440 Homeodomain-like domain; Region: HTH_23; cl17451 177416004441 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004442 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 177416004443 NAD binding site [chemical binding]; other site 177416004444 RNA polymerase beta'' subunit; Reviewed; Region: rpoC2; CHL00117 177416004445 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 177416004446 Domain of unknown function (DUF4280); Region: DUF4280; pfam14107 177416004447 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 177416004448 Intracellular growth locus C protein; Region: IglC; pfam11550 177416004449 Protein of unknown function (DUF877); Region: DUF877; pfam05943 177416004450 type VI secretion protein, VC_A0107 family; Region: VI_chp_5; TIGR03358 177416004451 Homeodomain-like domain; Region: HTH_23; cl17451 177416004452 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004453 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 177416004454 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 177416004455 dimerization interface [polypeptide binding]; other site 177416004456 ATP binding site [chemical binding]; other site 177416004457 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 177416004458 dimerization interface [polypeptide binding]; other site 177416004459 ATP binding site [chemical binding]; other site 177416004460 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 177416004461 putative active site [active] 177416004462 catalytic triad [active] 177416004463 amidophosphoribosyltransferase; Provisional; Region: PRK09246 177416004464 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 177416004465 active site 177416004466 tetramer interface [polypeptide binding]; other site 177416004467 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 177416004468 active site 177416004469 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 177416004470 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416004471 catalytic residue [active] 177416004472 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 177416004473 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 177416004474 Outer membrane efflux protein; Region: OEP; pfam02321 177416004475 Outer membrane efflux protein; Region: OEP; pfam02321 177416004476 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 177416004477 putative protease; Provisional; Region: PRK15452 177416004478 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 177416004479 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 177416004480 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 177416004481 putative substrate translocation pore; other site 177416004482 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 177416004483 Citrate transporter; Region: CitMHS; pfam03600 177416004484 Amino acid permease; Region: AA_permease_2; pfam13520 177416004485 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 177416004486 GTP1/OBG; Region: GTP1_OBG; pfam01018 177416004487 Obg GTPase; Region: Obg; cd01898 177416004488 G1 box; other site 177416004489 GTP/Mg2+ binding site [chemical binding]; other site 177416004490 Switch I region; other site 177416004491 G2 box; other site 177416004492 G3 box; other site 177416004493 Switch II region; other site 177416004494 G4 box; other site 177416004495 G5 box; other site 177416004496 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 177416004497 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 177416004498 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 177416004499 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 177416004500 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 177416004501 Ligand Binding Site [chemical binding]; other site 177416004502 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 177416004503 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 177416004504 dimer interface [polypeptide binding]; other site 177416004505 phosphorylation site [posttranslational modification] 177416004506 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 177416004507 ATP binding site [chemical binding]; other site 177416004508 Mg2+ binding site [ion binding]; other site 177416004509 G-X-G motif; other site 177416004510 K+-transporting ATPase, c chain; Region: KdpC; cl00944 177416004511 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 177416004512 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 177416004513 Soluble P-type ATPase [General function prediction only]; Region: COG4087 177416004514 Homeodomain-like domain; Region: HTH_23; cl17451 177416004515 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004516 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 177416004517 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 177416004518 dimer interface [polypeptide binding]; other site 177416004519 PYR/PP interface [polypeptide binding]; other site 177416004520 TPP binding site [chemical binding]; other site 177416004521 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 177416004522 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 177416004523 TPP-binding site [chemical binding]; other site 177416004524 dimer interface [polypeptide binding]; other site 177416004525 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 177416004526 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 177416004527 tandem repeat interface [polypeptide binding]; other site 177416004528 oligomer interface [polypeptide binding]; other site 177416004529 active site residues [active] 177416004530 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 177416004531 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 177416004532 preprotein translocase subunit SecB; Provisional; Region: PRK13031 177416004533 SecA binding site; other site 177416004534 Preprotein binding site; other site 177416004535 recombinase A; Provisional; Region: recA; PRK09354 177416004536 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 177416004537 hexamer interface [polypeptide binding]; other site 177416004538 Walker A motif; other site 177416004539 ATP binding site [chemical binding]; other site 177416004540 Walker B motif; other site 177416004541 recombination regulator RecX; Reviewed; Region: recX; PRK00117 177416004542 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 177416004543 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 177416004544 dimer interface [polypeptide binding]; other site 177416004545 ssDNA binding site [nucleotide binding]; other site 177416004546 tetramer (dimer of dimers) interface [polypeptide binding]; other site 177416004547 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 177416004548 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 177416004549 phosphate acetyltransferase; Reviewed; Region: PRK05632 177416004550 DRTGG domain; Region: DRTGG; pfam07085 177416004551 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 177416004552 Homeodomain-like domain; Region: HTH_23; cl17451 177416004553 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004554 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 177416004555 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14854 177416004556 hypothetical protein; Provisional; Region: PRK05421 177416004557 putative catalytic site [active] 177416004558 putative metal binding site [ion binding]; other site 177416004559 putative phosphate binding site [ion binding]; other site 177416004560 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 177416004561 putative acyl-acceptor binding pocket; other site 177416004562 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 177416004563 putative acyl-acceptor binding pocket; other site 177416004564 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 177416004565 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 177416004566 4Fe-4S binding domain; Region: Fer4; pfam00037 177416004567 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 177416004568 Frag1/DRAM/Sfk1 family; Region: Frag1; pfam10277 177416004569 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 177416004570 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 177416004571 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 177416004572 ATP-grasp domain; Region: ATP-grasp; pfam02222 177416004573 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 177416004574 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 177416004575 active site 177416004576 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 177416004577 Clp amino terminal domain; Region: Clp_N; pfam02861 177416004578 Clp amino terminal domain; Region: Clp_N; pfam02861 177416004579 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 177416004580 Walker A motif; other site 177416004581 ATP binding site [chemical binding]; other site 177416004582 Walker B motif; other site 177416004583 arginine finger; other site 177416004584 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl19151 177416004585 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 177416004586 Walker A motif; other site 177416004587 ATP binding site [chemical binding]; other site 177416004588 Walker B motif; other site 177416004589 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 177416004590 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 177416004591 substrate binding site [chemical binding]; other site 177416004592 active site 177416004593 catalytic residues [active] 177416004594 heterodimer interface [polypeptide binding]; other site 177416004595 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 177416004596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 177416004597 catalytic residue [active] 177416004598 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 177416004599 Cl- selectivity filter; other site 177416004600 Cl- binding residues [ion binding]; other site 177416004601 pore gating glutamate residue; other site 177416004602 dimer interface [polypeptide binding]; other site 177416004603 H+/Cl- coupling transport residue; other site 177416004604 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 177416004605 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 177416004606 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 177416004607 Protein of unknown function (DUF3568); Region: DUF3568; pfam12092 177416004608 Homeodomain-like domain; Region: HTH_23; cl17451 177416004609 DDE superfamily endonuclease; Region: DDE_3; pfam13358 177416004610 Methyltransferase domain; Region: Methyltransf_31; pfam13847 177416004611 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 177416004612 S-adenosylmethionine binding site [chemical binding]; other site 177416004613 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 177416004614 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177416004615 ABC transporter; Region: ABC_tran_2; pfam12848 177416004616 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 177416004617 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 177416004618 metabolite-proton symporter; Region: 2A0106; TIGR00883 177416004619 putative substrate translocation pore; other site 177416004620 LysE type translocator; Region: LysE; cl00565 177416004621 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 177416004622 aminopeptidase N; Provisional; Region: pepN; PRK14015 177416004623 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 177416004624 active site 177416004625 Zn binding site [ion binding]; other site 177416004626 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 177416004627 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 177416004628 putative dimer interface [polypeptide binding]; other site 177416004629 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 177416004630 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 177416004631 active site 177416004632 ribulose/triose binding site [chemical binding]; other site 177416004633 phosphate binding site [ion binding]; other site 177416004634 substrate (anthranilate) binding pocket [chemical binding]; other site 177416004635 product (indole) binding pocket [chemical binding]; other site 177416004636 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 177416004637 active site 177416004638 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 177416004639 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 177416004640 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 177416004641 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 177416004642 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 177416004643 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 177416004644 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 177416004645 Glutamine amidotransferase class-I; Region: GATase; pfam00117 177416004646 glutamine binding [chemical binding]; other site 177416004647 catalytic triad [active] 177416004648 anthranilate synthase component I; Provisional; Region: PRK13564 177416004649 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 177416004650 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 177416004651 Trp repressor protein; Region: Trp_repressor; cl17266 177416004652 ribonuclease G; Provisional; Region: PRK11712 177416004653 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 177416004654 homodimer interface [polypeptide binding]; other site 177416004655 oligonucleotide binding site [chemical binding]; other site 177416004656 Ribonuclease E/G family; Region: RNase_E_G; pfam10150