-- dump date 20140619_143904 -- class Genbank::misc_feature -- table misc_feature_note -- id note 481448000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 481448000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 481448000003 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 481448000004 Walker A motif; other site 481448000005 ATP binding site [chemical binding]; other site 481448000006 Walker B motif; other site 481448000007 arginine finger; other site 481448000008 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 481448000009 DnaA box-binding interface [nucleotide binding]; other site 481448000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 481448000011 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 481448000012 putative DNA binding surface [nucleotide binding]; other site 481448000013 dimer interface [polypeptide binding]; other site 481448000014 beta-clamp/clamp loader binding surface; other site 481448000015 beta-clamp/translesion DNA polymerase binding surface; other site 481448000016 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 481448000017 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 481448000018 Quinolinate synthetase A protein; Region: NadA; pfam02445 481448000019 hypothetical protein; Provisional; Region: PRK04358 481448000020 Adenylation domain of RNA circularization proteins; Region: Adenylation_RNA_ligase; cd07894 481448000021 active site 481448000022 dimer interface [polypeptide binding]; other site 481448000023 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 481448000024 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 481448000025 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 481448000026 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 481448000027 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 481448000028 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 481448000029 GDP-binding site [chemical binding]; other site 481448000030 ACT binding site; other site 481448000031 IMP binding site; other site 481448000032 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 481448000033 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 481448000034 catalytic residue [active] 481448000035 putative FPP diphosphate binding site; other site 481448000036 putative FPP binding hydrophobic cleft; other site 481448000037 dimer interface [polypeptide binding]; other site 481448000038 putative IPP diphosphate binding site; other site 481448000039 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 481448000040 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 481448000041 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 481448000042 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 481448000043 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 481448000044 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 481448000045 Transcription factor S-II (TFIIS), central domain; Region: TFIIS_M; cl02637 481448000046 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 481448000047 FeS/SAM binding site; other site 481448000048 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 481448000049 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 481448000050 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 481448000051 putative RNA binding site [nucleotide binding]; other site 481448000052 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 481448000053 S-adenosylmethionine binding site [chemical binding]; other site 481448000054 phosphoenolpyruvate synthase; Validated; Region: PRK06464 481448000055 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 481448000056 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 481448000057 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 481448000058 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 481448000059 CoA binding domain; Region: CoA_binding_2; pfam13380 481448000060 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 481448000061 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 481448000062 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 481448000063 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 481448000064 ParB-like nuclease domain; Region: ParBc; pfam02195 481448000065 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 481448000066 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 481448000067 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 481448000068 ATP binding site [chemical binding]; other site 481448000069 Mg2+ binding site [ion binding]; other site 481448000070 G-X-G motif; other site 481448000071 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 481448000072 ATP binding site [chemical binding]; other site 481448000073 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 481448000074 GTP-binding protein YchF; Reviewed; Region: PRK09601 481448000075 YchF GTPase; Region: YchF; cd01900 481448000076 G1 box; other site 481448000077 GTP/Mg2+ binding site [chemical binding]; other site 481448000078 Switch I region; other site 481448000079 G2 box; other site 481448000080 Switch II region; other site 481448000081 G3 box; other site 481448000082 G4 box; other site 481448000083 G5 box; other site 481448000084 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 481448000085 transcriptional activator RfaH; Region: RfaH; TIGR01955 481448000086 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 481448000087 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 481448000088 heterodimer interface [polypeptide binding]; other site 481448000089 homodimer interface [polypeptide binding]; other site 481448000090 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 481448000091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 481448000092 NAD(P) binding site [chemical binding]; other site 481448000093 active site 481448000094 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 481448000095 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 481448000096 inhibitor-cofactor binding pocket; inhibition site 481448000097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448000098 catalytic residue [active] 481448000099 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 481448000100 OstA-like protein; Region: OstA; cl00844 481448000101 Organic solvent tolerance protein; Region: OstA_C; pfam04453 481448000102 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 481448000103 K+-transporting ATPase, c chain [Inorganic ion transport and metabolism]; Region: KdpC; COG2156 481448000104 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 481448000105 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 481448000106 Soluble P-type ATPase [General function prediction only]; Region: COG4087 481448000107 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 481448000108 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 481448000109 primosomal protein N' Region: priA; TIGR00595 481448000110 ATP binding site [chemical binding]; other site 481448000111 putative Mg++ binding site [ion binding]; other site 481448000112 helicase superfamily c-terminal domain; Region: HELICc; smart00490 481448000113 Dodecin; Region: Dodecin; pfam07311 481448000114 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 481448000115 nucleoside/Zn binding site; other site 481448000116 dimer interface [polypeptide binding]; other site 481448000117 catalytic motif [active] 481448000118 Cytochrome c; Region: Cytochrom_C; pfam00034 481448000119 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 481448000120 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 481448000121 S-adenosylmethionine binding site [chemical binding]; other site 481448000122 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 481448000123 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 481448000124 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 481448000125 Walker A/P-loop; other site 481448000126 ATP binding site [chemical binding]; other site 481448000127 Q-loop/lid; other site 481448000128 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 481448000129 ABC transporter signature motif; other site 481448000130 Walker B; other site 481448000131 D-loop; other site 481448000132 H-loop/switch region; other site 481448000133 peptide chain release factor 2; Provisional; Region: PRK05589 481448000134 PCRF domain; Region: PCRF; pfam03462 481448000135 RF-1 domain; Region: RF-1; pfam00472 481448000136 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 481448000137 trimer interface [polypeptide binding]; other site 481448000138 dimer interface [polypeptide binding]; other site 481448000139 putative active site [active] 481448000140 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 481448000141 MPT binding site; other site 481448000142 trimer interface [polypeptide binding]; other site 481448000143 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 481448000144 Acyl-CoA reductase (LuxC); Region: LuxC; pfam05893 481448000145 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 481448000146 NAD(P) binding site [chemical binding]; other site 481448000147 catalytic residues [active] 481448000148 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 481448000149 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 481448000150 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 481448000151 Chlam_Verruc_Plancto small basic protein; Region: Chlam_Ver_rRNA; TIGR04137 481448000152 Protein of unknown function, DUF399; Region: DUF399; pfam04187 481448000153 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 481448000154 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 481448000155 motif II; other site 481448000156 TPR repeat; Region: TPR_11; pfam13414 481448000157 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 481448000158 catalytic motif [active] 481448000159 Catalytic residue [active] 481448000160 putative GTP cyclohydrolase; Provisional; Region: PRK13674 481448000161 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 481448000162 ThiC-associated domain; Region: ThiC-associated; pfam13667 481448000163 ThiC family; Region: ThiC; pfam01964 481448000164 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 481448000165 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 481448000166 TPP-binding site [chemical binding]; other site 481448000167 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 481448000168 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 481448000169 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 481448000170 E3 interaction surface; other site 481448000171 lipoyl attachment site [posttranslational modification]; other site 481448000172 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 481448000173 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 481448000174 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 481448000175 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448000176 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 481448000177 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 481448000178 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 481448000179 active site 481448000180 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 481448000181 dimer interface [polypeptide binding]; other site 481448000182 substrate binding site [chemical binding]; other site 481448000183 catalytic residues [active] 481448000184 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 481448000185 Glycoprotease family; Region: Peptidase_M22; pfam00814 481448000186 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 481448000187 thiamine monophosphate kinase; Provisional; Region: PRK05731 481448000188 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 481448000189 ATP binding site [chemical binding]; other site 481448000190 dimerization interface [polypeptide binding]; other site 481448000191 CAAX protease self-immunity; Region: Abi; pfam02517 481448000192 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 481448000193 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 481448000194 tandem repeat interface [polypeptide binding]; other site 481448000195 oligomer interface [polypeptide binding]; other site 481448000196 active site residues [active] 481448000197 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 481448000198 active site 481448000199 KMSKS motif; other site 481448000200 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 481448000201 tRNA binding surface [nucleotide binding]; other site 481448000202 anticodon binding site; other site 481448000203 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 481448000204 IHF - DNA interface [nucleotide binding]; other site 481448000205 IHF dimer interface [polypeptide binding]; other site 481448000206 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 481448000207 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 481448000208 dimer interface [polypeptide binding]; other site 481448000209 motif 1; other site 481448000210 active site 481448000211 motif 2; other site 481448000212 motif 3; other site 481448000213 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 481448000214 anticodon binding site; other site 481448000215 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 481448000216 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 481448000217 dimer interface [polypeptide binding]; other site 481448000218 anticodon binding site; other site 481448000219 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 481448000220 homodimer interface [polypeptide binding]; other site 481448000221 motif 1; other site 481448000222 active site 481448000223 motif 2; other site 481448000224 GAD domain; Region: GAD; pfam02938 481448000225 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 481448000226 active site 481448000227 motif 3; other site 481448000228 pyruvate kinase; Provisional; Region: PRK05826 481448000229 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 481448000230 domain interfaces; other site 481448000231 active site 481448000232 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 481448000233 classical (c) SDRs; Region: SDR_c; cd05233 481448000234 NAD(P) binding site [chemical binding]; other site 481448000235 active site 481448000236 acyl transferase; Provisional; Region: luxD; PRK13604 481448000237 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 481448000238 Serine hydrolase (FSH1); Region: FSH1; pfam03959 481448000239 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 481448000240 trimer interface [polypeptide binding]; other site 481448000241 active site 481448000242 Radical SAM superfamily; Region: Radical_SAM; pfam04055 481448000243 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 481448000244 FeS/SAM binding site; other site 481448000245 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 481448000246 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 481448000247 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 481448000248 dimer interface [polypeptide binding]; other site 481448000249 active site residues [active] 481448000250 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 481448000251 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 481448000252 hypothetical protein; Provisional; Region: PRK13665 481448000253 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 481448000254 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448000255 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 481448000256 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 481448000257 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 481448000258 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 481448000259 N-acetyl-D-glucosamine binding site [chemical binding]; other site 481448000260 catalytic residue [active] 481448000261 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 481448000262 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 481448000263 NADPH bind site [chemical binding]; other site 481448000264 putative FMN binding site [chemical binding]; other site 481448000265 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 481448000266 putative FMN binding site [chemical binding]; other site 481448000267 NADPH bind site [chemical binding]; other site 481448000268 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 481448000269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448000270 catalytic residue [active] 481448000271 exopolyphosphatase; Region: exo_poly_only; TIGR03706 481448000272 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 481448000273 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 481448000274 Clp amino terminal domain; Region: Clp_N; pfam02861 481448000275 Clp amino terminal domain; Region: Clp_N; pfam02861 481448000276 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 481448000277 Walker A motif; other site 481448000278 ATP binding site [chemical binding]; other site 481448000279 Walker B motif; other site 481448000280 arginine finger; other site 481448000281 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 481448000282 Walker A motif; other site 481448000283 ATP binding site [chemical binding]; other site 481448000284 Walker B motif; other site 481448000285 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 481448000286 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 481448000287 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 481448000288 MutS domain I; Region: MutS_I; pfam01624 481448000289 MutS domain II; Region: MutS_II; pfam05188 481448000290 MutS domain III; Region: MutS_III; pfam05192 481448000291 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 481448000292 Walker A/P-loop; other site 481448000293 ATP binding site [chemical binding]; other site 481448000294 Q-loop/lid; other site 481448000295 ABC transporter signature motif; other site 481448000296 Walker B; other site 481448000297 D-loop; other site 481448000298 H-loop/switch region; other site 481448000299 thymidylate synthase; Reviewed; Region: thyA; PRK01827 481448000300 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 481448000301 dimerization interface [polypeptide binding]; other site 481448000302 active site 481448000303 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 481448000304 Fatty acid desaturase; Region: FA_desaturase; pfam00487 481448000305 putative di-iron ligands [ion binding]; other site 481448000306 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 481448000307 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448000308 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 481448000309 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 481448000310 Fic family protein [Function unknown]; Region: COG3177 481448000311 Fic/DOC family; Region: Fic; pfam02661 481448000312 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 481448000313 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448000314 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448000315 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 481448000316 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448000317 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 481448000318 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 481448000319 Peptidase family M50; Region: Peptidase_M50; pfam02163 481448000320 active site 481448000321 putative substrate binding region [chemical binding]; other site 481448000322 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448000323 HlyD family secretion protein; Region: HlyD; pfam00529 481448000324 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 481448000325 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448000326 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 481448000327 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 481448000328 trmE is a tRNA modification GTPase; Region: trmE; cd04164 481448000329 G1 box; other site 481448000330 GTP/Mg2+ binding site [chemical binding]; other site 481448000331 Switch I region; other site 481448000332 G2 box; other site 481448000333 Switch II region; other site 481448000334 G3 box; other site 481448000335 G4 box; other site 481448000336 G5 box; other site 481448000337 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 481448000338 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 481448000339 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 481448000340 quinone interaction residues [chemical binding]; other site 481448000341 active site 481448000342 catalytic residues [active] 481448000343 FMN binding site [chemical binding]; other site 481448000344 substrate binding site [chemical binding]; other site 481448000345 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 481448000346 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 481448000347 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 481448000348 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448000349 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448000350 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448000351 TRAM domain; Region: TRAM; cl01282 481448000352 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 481448000353 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 481448000354 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 481448000355 putative ADP-ribose binding site [chemical binding]; other site 481448000356 putative active site [active] 481448000357 Fic/DOC family; Region: Fic; cl00960 481448000358 Methyltransferase domain; Region: Methyltransf_31; pfam13847 481448000359 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 481448000360 S-adenosylmethionine binding site [chemical binding]; other site 481448000361 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 481448000362 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 481448000363 HEPN domain; Region: HEPN; pfam05168 481448000364 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 481448000365 active site 481448000366 NTP binding site [chemical binding]; other site 481448000367 metal binding triad [ion binding]; metal-binding site 481448000368 antibiotic binding site [chemical binding]; other site 481448000369 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 481448000370 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 481448000371 catalytic residues [active] 481448000372 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 481448000373 putative amphipathic alpha helix; other site 481448000374 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 481448000375 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 481448000376 putative active site [active] 481448000377 heme pocket [chemical binding]; other site 481448000378 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 481448000379 dimer interface [polypeptide binding]; other site 481448000380 phosphorylation site [posttranslational modification] 481448000381 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 481448000382 ATP binding site [chemical binding]; other site 481448000383 Mg2+ binding site [ion binding]; other site 481448000384 G-X-G motif; other site 481448000385 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 481448000386 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 481448000387 active site 481448000388 phosphorylation site [posttranslational modification] 481448000389 intermolecular recognition site; other site 481448000390 dimerization interface [polypeptide binding]; other site 481448000391 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 481448000392 DNA binding site [nucleotide binding] 481448000393 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 481448000394 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 481448000395 ATP binding site [chemical binding]; other site 481448000396 Mg2+ binding site [ion binding]; other site 481448000397 G-X-G motif; other site 481448000398 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 481448000399 anchoring element; other site 481448000400 dimer interface [polypeptide binding]; other site 481448000401 ATP binding site [chemical binding]; other site 481448000402 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 481448000403 active site 481448000404 putative metal-binding site [ion binding]; other site 481448000405 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 481448000406 DNA gyrase subunit A; Validated; Region: PRK05560 481448000407 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 481448000408 CAP-like domain; other site 481448000409 active site 481448000410 primary dimer interface [polypeptide binding]; other site 481448000411 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 481448000412 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 481448000413 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 481448000414 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 481448000415 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 481448000416 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 481448000417 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 481448000418 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 481448000419 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 481448000420 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 481448000421 putative active site [active] 481448000422 substrate binding site [chemical binding]; other site 481448000423 putative cosubstrate binding site; other site 481448000424 catalytic site [active] 481448000425 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 481448000426 substrate binding site [chemical binding]; other site 481448000427 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 481448000428 Adenosine deaminase z-alpha domain; Region: z-alpha; cl02659 481448000429 Protein of unknown function, DUF486; Region: DUF486; cl01236 481448000430 acetyl-CoA synthetase; Provisional; Region: PRK00174 481448000431 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 481448000432 active site 481448000433 CoA binding site [chemical binding]; other site 481448000434 acyl-activating enzyme (AAE) consensus motif; other site 481448000435 AMP binding site [chemical binding]; other site 481448000436 acetate binding site [chemical binding]; other site 481448000437 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 481448000438 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 481448000439 Walker A motif; other site 481448000440 ATP binding site [chemical binding]; other site 481448000441 Walker B motif; other site 481448000442 arginine finger; other site 481448000443 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 481448000444 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 481448000445 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 481448000446 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 481448000447 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 481448000448 GTP-binding protein Der; Reviewed; Region: PRK00093 481448000449 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 481448000450 Switch I region; other site 481448000451 G2 box; other site 481448000452 Switch II region; other site 481448000453 G3 box; other site 481448000454 GTP/Mg2+ binding site [chemical binding]; other site 481448000455 G4 box; other site 481448000456 G5 box; other site 481448000457 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 481448000458 G1 box; other site 481448000459 GTP/Mg2+ binding site [chemical binding]; other site 481448000460 Switch I region; other site 481448000461 G2 box; other site 481448000462 G3 box; other site 481448000463 Switch II region; other site 481448000464 G4 box; other site 481448000465 G5 box; other site 481448000466 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 481448000467 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 481448000468 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 481448000469 active site 481448000470 HIGH motif; other site 481448000471 KMSKS motif; other site 481448000472 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 481448000473 putative ligand binding pocket/active site [active] 481448000474 putative metal binding site [ion binding]; other site 481448000475 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 481448000476 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 481448000477 active site 481448000478 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 481448000479 dimer interface [polypeptide binding]; other site 481448000480 N-terminal domain interface [polypeptide binding]; other site 481448000481 sulfate 1 binding site; other site 481448000482 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 481448000483 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 481448000484 glutaminase active site [active] 481448000485 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 481448000486 dimer interface [polypeptide binding]; other site 481448000487 active site 481448000488 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 481448000489 dimer interface [polypeptide binding]; other site 481448000490 active site 481448000491 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 481448000492 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 481448000493 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 481448000494 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 481448000495 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 481448000496 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 481448000497 Tetramer interface [polypeptide binding]; other site 481448000498 active site 481448000499 FMN-binding site [chemical binding]; other site 481448000500 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 481448000501 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 481448000502 ADP binding site [chemical binding]; other site 481448000503 magnesium binding site [ion binding]; other site 481448000504 putative shikimate binding site; other site 481448000505 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 481448000506 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 481448000507 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 481448000508 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 481448000509 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 481448000510 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 481448000511 catalytic residues [active] 481448000512 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 481448000513 Cation efflux family; Region: Cation_efflux; pfam01545 481448000514 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 481448000515 Uncharacterized conserved protein [Function unknown]; Region: COG3391 481448000516 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 481448000517 Phosphoesterase family; Region: Phosphoesterase; pfam04185 481448000518 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 481448000519 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 481448000520 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 481448000521 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 481448000522 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 481448000523 UvrB/uvrC motif; Region: UVR; pfam02151 481448000524 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 481448000525 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 481448000526 homodimer interface [polypeptide binding]; other site 481448000527 substrate-cofactor binding pocket; other site 481448000528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448000529 catalytic residue [active] 481448000530 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 481448000531 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 481448000532 Walker A/P-loop; other site 481448000533 ATP binding site [chemical binding]; other site 481448000534 Q-loop/lid; other site 481448000535 ABC transporter signature motif; other site 481448000536 Walker B; other site 481448000537 D-loop; other site 481448000538 H-loop/switch region; other site 481448000539 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 481448000540 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 481448000541 FtsX-like permease family; Region: FtsX; pfam02687 481448000542 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 481448000543 prephenate dehydrogenase; Validated; Region: PRK08507 481448000544 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 481448000545 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 481448000546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448000547 homodimer interface [polypeptide binding]; other site 481448000548 catalytic residue [active] 481448000549 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 481448000550 Low molecular weight phosphatase family; Region: LMWPc; cl00105 481448000551 active site 481448000552 NADH dehydrogenase subunit B; Provisional; Region: PRK14815 481448000553 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 481448000554 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 481448000555 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 481448000556 NADH dehydrogenase subunit D; Validated; Region: PRK06075 481448000557 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 481448000558 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 481448000559 putative dimer interface [polypeptide binding]; other site 481448000560 [2Fe-2S] cluster binding site [ion binding]; other site 481448000561 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 481448000562 SLBB domain; Region: SLBB; pfam10531 481448000563 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 481448000564 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 481448000565 catalytic loop [active] 481448000566 iron binding site [ion binding]; other site 481448000567 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 481448000568 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 481448000569 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 481448000570 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 481448000571 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 481448000572 Flavodoxin; Region: Flavodoxin_1; pfam00258 481448000573 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 481448000574 FAD binding pocket [chemical binding]; other site 481448000575 FAD binding motif [chemical binding]; other site 481448000576 catalytic residues [active] 481448000577 NAD binding pocket [chemical binding]; other site 481448000578 phosphate binding motif [ion binding]; other site 481448000579 beta-alpha-beta structure motif; other site 481448000580 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 481448000581 recombination and repair protein; Provisional; Region: PRK10869 481448000582 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 481448000583 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 481448000584 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 481448000585 Walker A motif; other site 481448000586 ATP binding site [chemical binding]; other site 481448000587 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 481448000588 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 481448000589 HflX GTPase family; Region: HflX; cd01878 481448000590 G1 box; other site 481448000591 GTP/Mg2+ binding site [chemical binding]; other site 481448000592 Switch I region; other site 481448000593 G2 box; other site 481448000594 G3 box; other site 481448000595 Switch II region; other site 481448000596 G4 box; other site 481448000597 G5 box; other site 481448000598 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 481448000599 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 481448000600 active site 481448000601 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448000602 active site 481448000603 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 481448000604 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 481448000605 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 481448000606 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 481448000607 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 481448000608 DNA binding residues [nucleotide binding] 481448000609 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 481448000610 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 481448000611 dimer interface [polypeptide binding]; other site 481448000612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448000613 catalytic residue [active] 481448000614 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 481448000615 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 481448000616 active site 481448000617 metal binding site [ion binding]; metal-binding site 481448000618 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 481448000619 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 481448000620 putative active site [active] 481448000621 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 481448000622 Ion channel; Region: Ion_trans_2; pfam07885 481448000623 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 481448000624 membrane-bound complex binding site; other site 481448000625 hinge residues; other site 481448000626 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 481448000627 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 481448000628 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 481448000629 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 481448000630 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448000631 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448000632 2-dehydropantoate 2-reductase; Provisional; Region: PRK06249 481448000633 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 481448000634 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 481448000635 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 481448000636 Clp amino terminal domain; Region: Clp_N; pfam02861 481448000637 Clp amino terminal domain; Region: Clp_N; pfam02861 481448000638 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 481448000639 Walker A motif; other site 481448000640 ATP binding site [chemical binding]; other site 481448000641 Walker B motif; other site 481448000642 arginine finger; other site 481448000643 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 481448000644 Walker A motif; other site 481448000645 ATP binding site [chemical binding]; other site 481448000646 Walker B motif; other site 481448000647 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 481448000648 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 481448000649 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 481448000650 ADP binding site [chemical binding]; other site 481448000651 phosphagen binding site; other site 481448000652 substrate specificity loop; other site 481448000653 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 481448000654 histidinol dehydrogenase; Region: hisD; TIGR00069 481448000655 NAD binding site [chemical binding]; other site 481448000656 dimerization interface [polypeptide binding]; other site 481448000657 product binding site; other site 481448000658 substrate binding site [chemical binding]; other site 481448000659 zinc binding site [ion binding]; other site 481448000660 catalytic residues [active] 481448000661 GMP synthase; Reviewed; Region: guaA; PRK00074 481448000662 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 481448000663 AMP/PPi binding site [chemical binding]; other site 481448000664 candidate oxyanion hole; other site 481448000665 catalytic triad [active] 481448000666 potential glutamine specificity residues [chemical binding]; other site 481448000667 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 481448000668 ATP Binding subdomain [chemical binding]; other site 481448000669 Ligand Binding sites [chemical binding]; other site 481448000670 Dimerization subdomain; other site 481448000671 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 481448000672 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 481448000673 active site 481448000674 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448000675 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 481448000676 Predicted methyltransferases [General function prediction only]; Region: COG0313 481448000677 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 481448000678 putative SAM binding site [chemical binding]; other site 481448000679 putative homodimer interface [polypeptide binding]; other site 481448000680 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 481448000681 S-adenosylmethionine binding site [chemical binding]; other site 481448000682 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 481448000683 putative homodimer interface [polypeptide binding]; other site 481448000684 putative active site pocket [active] 481448000685 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 481448000686 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 481448000687 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 481448000688 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 481448000689 THF binding site; other site 481448000690 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 481448000691 substrate binding site [chemical binding]; other site 481448000692 THF binding site; other site 481448000693 zinc-binding site [ion binding]; other site 481448000694 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 481448000695 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 481448000696 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 481448000697 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 481448000698 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 481448000699 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 481448000700 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 481448000701 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 481448000702 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 481448000703 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 481448000704 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 481448000705 Beta-Casp domain; Region: Beta-Casp; pfam10996 481448000706 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 481448000707 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 481448000708 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 481448000709 putative NAD(P) binding site [chemical binding]; other site 481448000710 putative substrate binding site [chemical binding]; other site 481448000711 catalytic Zn binding site [ion binding]; other site 481448000712 structural Zn binding site [ion binding]; other site 481448000713 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 481448000714 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 481448000715 active site 481448000716 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 481448000717 DEAD/DEAH box helicase; Region: DEAD; pfam00270 481448000718 DEAD_2; Region: DEAD_2; pfam06733 481448000719 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 481448000720 aspartate aminotransferase; Provisional; Region: PRK06290 481448000721 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 481448000722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448000723 homodimer interface [polypeptide binding]; other site 481448000724 catalytic residue [active] 481448000725 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 481448000726 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 481448000727 putative active site [active] 481448000728 metal binding site [ion binding]; metal-binding site 481448000729 homodimer binding site [polypeptide binding]; other site 481448000730 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 481448000731 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 481448000732 intersubunit interface [polypeptide binding]; other site 481448000733 active site 481448000734 zinc binding site [ion binding]; other site 481448000735 Na+ binding site [ion binding]; other site 481448000736 hypothetical protein; Provisional; Region: PRK02395 481448000737 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 481448000738 putative active site [active] 481448000739 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 481448000740 putative active site [active] 481448000741 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 481448000742 N-acetylglutamate synthase; Validated; Region: PRK05279 481448000743 nucleotide binding site [chemical binding]; other site 481448000744 substrate binding site [chemical binding]; other site 481448000745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 481448000746 Coenzyme A binding pocket [chemical binding]; other site 481448000747 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 481448000748 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 481448000749 SurA N-terminal domain; Region: SurA_N_3; cl07813 481448000750 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 481448000751 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 481448000752 DEAD-like helicases superfamily; Region: DEXDc; smart00487 481448000753 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 481448000754 ATP binding site [chemical binding]; other site 481448000755 putative Mg++ binding site [ion binding]; other site 481448000756 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 481448000757 nucleotide binding region [chemical binding]; other site 481448000758 ATP-binding site [chemical binding]; other site 481448000759 TRCF domain; Region: TRCF; pfam03461 481448000760 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 481448000761 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 481448000762 trimerization site [polypeptide binding]; other site 481448000763 active site 481448000764 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 481448000765 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 481448000766 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 481448000767 catalytic residue [active] 481448000768 Acetokinase family; Region: Acetate_kinase; cl17229 481448000769 propionate/acetate kinase; Provisional; Region: PRK12379 481448000770 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 481448000771 Peptidase family M50; Region: Peptidase_M50; pfam02163 481448000772 active site 481448000773 putative substrate binding region [chemical binding]; other site 481448000774 FOG: CBS domain [General function prediction only]; Region: COG0517 481448000775 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 481448000776 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 481448000777 hypothetical protein; Reviewed; Region: PRK09588 481448000778 Archease protein family (MTH1598/TM1083); Region: Archease; pfam01951 481448000779 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 481448000780 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 481448000781 Probable Catalytic site; other site 481448000782 metal-binding site 481448000783 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 481448000784 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 481448000785 FeS/SAM binding site; other site 481448000786 HemN C-terminal domain; Region: HemN_C; pfam06969 481448000787 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 481448000788 Septum formation initiator; Region: DivIC; pfam04977 481448000789 enolase; Provisional; Region: eno; PRK00077 481448000790 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 481448000791 dimer interface [polypeptide binding]; other site 481448000792 metal binding site [ion binding]; metal-binding site 481448000793 substrate binding pocket [chemical binding]; other site 481448000794 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 481448000795 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 481448000796 putative substrate translocation pore; other site 481448000797 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 481448000798 catalytic core [active] 481448000799 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 481448000800 Superfamily I DNA/RNA helicase (frameshifted); Minf_0318 and Minf_0319 481448000801 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 481448000802 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 481448000803 Methyltransferase domain; Region: Methyltransf_26; pfam13659 481448000804 DNA methylase; Region: N6_N4_Mtase; cl17433 481448000805 PglZ domain; Region: PglZ; pfam08665 481448000806 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 481448000807 ATP binding site [chemical binding]; other site 481448000808 putative Mg++ binding site [ion binding]; other site 481448000809 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 481448000810 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 481448000811 nucleotide binding region [chemical binding]; other site 481448000812 ATP-binding site [chemical binding]; other site 481448000813 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 481448000814 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 481448000815 active site 481448000816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448000817 AAA domain; Region: AAA_23; pfam13476 481448000818 Walker A/P-loop; other site 481448000819 ATP binding site [chemical binding]; other site 481448000820 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448000821 ABC transporter signature motif; other site 481448000822 Walker B; other site 481448000823 D-loop; other site 481448000824 H-loop/switch region; other site 481448000825 DNA methylase; Region: N6_N4_Mtase; cl17433 481448000826 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 481448000827 Methyltransferase domain; Region: Methyltransf_26; pfam13659 481448000828 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 481448000829 active site 481448000830 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 481448000831 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 481448000832 RNA binding surface [nucleotide binding]; other site 481448000833 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 481448000834 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 481448000835 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 481448000836 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 481448000837 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 481448000838 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 481448000839 TPR motif; other site 481448000840 binding surface 481448000841 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 481448000842 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 481448000843 dimer interface [polypeptide binding]; other site 481448000844 Citrate synthase; Region: Citrate_synt; pfam00285 481448000845 active site 481448000846 citrylCoA binding site [chemical binding]; other site 481448000847 oxalacetate/citrate binding site [chemical binding]; other site 481448000848 coenzyme A binding site [chemical binding]; other site 481448000849 catalytic triad [active] 481448000850 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 481448000851 Catalytic NodB homology domain of Streptococcus pneumoniae peptidoglycan deacetylase PgdA, Bacillus subtilis BsYjeA protein, and their bacterial homologs; Region: CE4_SpPgdA_BsYjeA_like; cd10947 481448000852 NodB motif; other site 481448000853 active site 481448000854 catalytic site [active] 481448000855 Zn binding site [ion binding]; other site 481448000856 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 481448000857 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448000858 DNA binding residues [nucleotide binding] 481448000859 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448000860 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 481448000861 Methyltransferase domain; Region: Methyltransf_23; pfam13489 481448000862 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 481448000863 S-adenosylmethionine binding site [chemical binding]; other site 481448000864 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 481448000865 catalytic center binding site [active] 481448000866 ATP binding site [chemical binding]; other site 481448000867 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 481448000868 active site 481448000869 oligomerization interface [polypeptide binding]; other site 481448000870 metal binding site [ion binding]; metal-binding site 481448000871 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 481448000872 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 481448000873 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 481448000874 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 481448000875 Probable Catalytic site; other site 481448000876 metal-binding site 481448000877 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 481448000878 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 481448000879 putative active site [active] 481448000880 putative metal binding site [ion binding]; other site 481448000881 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 481448000882 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 481448000883 putative metal binding site; other site 481448000884 Fic/DOC family; Region: Fic; pfam02661 481448000885 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 481448000886 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 481448000887 active site 481448000888 Protein of unknown function (DUF342); Region: DUF342; pfam03961 481448000889 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 481448000890 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 481448000891 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 481448000892 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 481448000893 active site 481448000894 phosphorylation site [posttranslational modification] 481448000895 intermolecular recognition site; other site 481448000896 dimerization interface [polypeptide binding]; other site 481448000897 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 481448000898 Walker A motif; other site 481448000899 ATP binding site [chemical binding]; other site 481448000900 Walker B motif; other site 481448000901 arginine finger; other site 481448000902 Methyltransferase domain; Region: Methyltransf_24; pfam13578 481448000903 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 481448000904 metal binding site 2 [ion binding]; metal-binding site 481448000905 putative DNA binding helix; other site 481448000906 metal binding site 1 [ion binding]; metal-binding site 481448000907 dimer interface [polypeptide binding]; other site 481448000908 structural Zn2+ binding site [ion binding]; other site 481448000909 RNase_H superfamily; Region: RNase_H_2; pfam13482 481448000910 active site 481448000911 substrate binding site [chemical binding]; other site 481448000912 catalytic site [active] 481448000913 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 481448000914 rRNA interaction site [nucleotide binding]; other site 481448000915 S8 interaction site; other site 481448000916 putative laminin-1 binding site; other site 481448000917 elongation factor Ts; Reviewed; Region: tsf; PRK12332 481448000918 UBA/TS-N domain; Region: UBA; pfam00627 481448000919 Elongation factor TS; Region: EF_TS; pfam00889 481448000920 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 481448000921 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 481448000922 ATP-grasp domain; Region: ATP-grasp_4; cl17255 481448000923 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 481448000924 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 481448000925 thiamine phosphate binding site [chemical binding]; other site 481448000926 active site 481448000927 pyrophosphate binding site [ion binding]; other site 481448000928 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 481448000929 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 481448000930 NAD(P) binding site [chemical binding]; other site 481448000931 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 481448000932 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 481448000933 active site 481448000934 HIGH motif; other site 481448000935 nucleotide binding site [chemical binding]; other site 481448000936 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 481448000937 active site 481448000938 KMSKS motif; other site 481448000939 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 481448000940 tRNA binding surface [nucleotide binding]; other site 481448000941 anticodon binding site; other site 481448000942 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 481448000943 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 481448000944 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 481448000945 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 481448000946 dimer interface [polypeptide binding]; other site 481448000947 motif 1; other site 481448000948 active site 481448000949 motif 2; other site 481448000950 motif 3; other site 481448000951 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 481448000952 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 481448000953 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 481448000954 Potassium binding sites [ion binding]; other site 481448000955 Cesium cation binding sites [ion binding]; other site 481448000956 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 481448000957 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448000958 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448000959 DNA binding residues [nucleotide binding] 481448000960 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 481448000961 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 481448000962 catalytic residues [active] 481448000963 catalytic nucleophile [active] 481448000964 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 481448000965 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 481448000966 Catalytic site [active] 481448000967 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 481448000968 GTP-binding protein LepA; Provisional; Region: PRK05433 481448000969 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 481448000970 G2 box; other site 481448000971 Switch I region; other site 481448000972 G3 box; other site 481448000973 Switch II region; other site 481448000974 GTP/Mg2+ binding site [chemical binding]; other site 481448000975 G4 box; other site 481448000976 G5 box; other site 481448000977 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 481448000978 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 481448000979 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 481448000980 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 481448000981 active site 481448000982 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 481448000983 catalytic tetrad [active] 481448000984 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 481448000985 putative acyl-acceptor binding pocket; other site 481448000986 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 481448000987 Domain of unknown function DUF21; Region: DUF21; pfam01595 481448000988 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 481448000989 Transporter associated domain; Region: CorC_HlyC; smart01091 481448000990 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 481448000991 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 481448000992 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 481448000993 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 481448000994 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 481448000995 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 481448000996 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 481448000997 putative Iron-sulfur protein interface [polypeptide binding]; other site 481448000998 proximal heme binding site [chemical binding]; other site 481448000999 distal heme binding site [chemical binding]; other site 481448001000 putative dimer interface [polypeptide binding]; other site 481448001001 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 481448001002 L-aspartate oxidase; Provisional; Region: PRK06175 481448001003 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 481448001004 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 481448001005 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 481448001006 Sodium Bile acid symporter family; Region: SBF; cl17470 481448001007 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 481448001008 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 481448001009 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 481448001010 Walker A/P-loop; other site 481448001011 ATP binding site [chemical binding]; other site 481448001012 Q-loop/lid; other site 481448001013 ABC transporter signature motif; other site 481448001014 Walker B; other site 481448001015 D-loop; other site 481448001016 H-loop/switch region; other site 481448001017 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 481448001018 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 481448001019 dimer interface [polypeptide binding]; other site 481448001020 conserved gate region; other site 481448001021 putative PBP binding loops; other site 481448001022 ABC-ATPase subunit interface; other site 481448001023 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 481448001024 PBP superfamily domain; Region: PBP_like_2; cl17296 481448001025 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 481448001026 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 481448001027 substrate binding pocket [chemical binding]; other site 481448001028 chain length determination region; other site 481448001029 substrate-Mg2+ binding site; other site 481448001030 catalytic residues [active] 481448001031 aspartate-rich region 1; other site 481448001032 active site lid residues [active] 481448001033 aspartate-rich region 2; other site 481448001034 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 481448001035 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 481448001036 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 481448001037 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 481448001038 Active site cavity [active] 481448001039 catalytic acid [active] 481448001040 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 481448001041 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 481448001042 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 481448001043 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 481448001044 HIGH motif; other site 481448001045 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 481448001046 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 481448001047 active site 481448001048 KMSKS motif; other site 481448001049 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 481448001050 tRNA binding surface [nucleotide binding]; other site 481448001051 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 481448001052 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 481448001053 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 481448001054 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 481448001055 metal binding site [ion binding]; metal-binding site 481448001056 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 481448001057 Ferritin-like domain; Region: Ferritin; pfam00210 481448001058 ferroxidase diiron center [ion binding]; other site 481448001059 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 481448001060 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 481448001061 P-loop; other site 481448001062 Magnesium ion binding site [ion binding]; other site 481448001063 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 481448001064 Magnesium ion binding site [ion binding]; other site 481448001065 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 481448001066 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 481448001067 Walker A/P-loop; other site 481448001068 ATP binding site [chemical binding]; other site 481448001069 Q-loop/lid; other site 481448001070 ABC transporter signature motif; other site 481448001071 Walker B; other site 481448001072 D-loop; other site 481448001073 H-loop/switch region; other site 481448001074 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 481448001075 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 481448001076 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 481448001077 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 481448001078 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 481448001079 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 481448001080 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 481448001081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 481448001082 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 481448001083 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 481448001084 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448001085 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448001086 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 481448001087 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 481448001088 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 481448001089 nudix motif; other site 481448001090 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 481448001091 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 481448001092 active site 481448001093 (T/H)XGH motif; other site 481448001094 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 481448001095 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 481448001096 hinge; other site 481448001097 active site 481448001098 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 481448001099 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 481448001100 S-adenosylmethionine binding site [chemical binding]; other site 481448001101 peptide chain release factor 1; Validated; Region: prfA; PRK00591 481448001102 PCRF domain; Region: PCRF; pfam03462 481448001103 RF-1 domain; Region: RF-1; pfam00472 481448001104 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 481448001105 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 481448001106 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 481448001107 dimer interface [polypeptide binding]; other site 481448001108 active site 481448001109 acyl carrier protein; Provisional; Region: acpP; PRK00982 481448001110 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 481448001111 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 481448001112 NAD(P) binding site [chemical binding]; other site 481448001113 homotetramer interface [polypeptide binding]; other site 481448001114 homodimer interface [polypeptide binding]; other site 481448001115 active site 481448001116 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 481448001117 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 481448001118 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 481448001119 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 481448001120 minor groove reading motif; other site 481448001121 helix-hairpin-helix signature motif; other site 481448001122 substrate binding pocket [chemical binding]; other site 481448001123 active site 481448001124 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 481448001125 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 481448001126 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 481448001127 FeS/SAM binding site; other site 481448001128 Helix-turn-helix domain; Region: HTH_25; pfam13413 481448001129 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 481448001130 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 481448001131 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 481448001132 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 481448001133 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 481448001134 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 481448001135 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 481448001136 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 481448001137 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 481448001138 histidinol-phosphatase; Provisional; Region: PRK07328 481448001139 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 481448001140 active site 481448001141 dimer interface [polypeptide binding]; other site 481448001142 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 481448001143 active site lid residues [active] 481448001144 substrate binding pocket [chemical binding]; other site 481448001145 catalytic residues [active] 481448001146 substrate-Mg2+ binding site; other site 481448001147 aspartate-rich region 1; other site 481448001148 aspartate-rich region 2; other site 481448001149 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 481448001150 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 481448001151 CoA-binding site [chemical binding]; other site 481448001152 ATP-binding [chemical binding]; other site 481448001153 transcription termination factor Rho; Provisional; Region: rho; PRK09376 481448001154 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 481448001155 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 481448001156 RNA binding site [nucleotide binding]; other site 481448001157 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 481448001158 multimer interface [polypeptide binding]; other site 481448001159 Walker A motif; other site 481448001160 ATP binding site [chemical binding]; other site 481448001161 Walker B motif; other site 481448001162 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 481448001163 dimer interface [polypeptide binding]; other site 481448001164 substrate binding site [chemical binding]; other site 481448001165 metal binding sites [ion binding]; metal-binding site 481448001166 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 481448001167 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 481448001168 DNA binding residues [nucleotide binding] 481448001169 dimer interface [polypeptide binding]; other site 481448001170 mercury binding site [ion binding]; other site 481448001171 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 481448001172 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 481448001173 metal-binding site [ion binding] 481448001174 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 481448001175 metal-binding site [ion binding] 481448001176 mercuric reductase; Region: MerA; TIGR02053 481448001177 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448001178 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 481448001179 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 481448001180 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 481448001181 FeS/SAM binding site; other site 481448001182 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 481448001183 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 481448001184 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 481448001185 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 481448001186 NifZ domain; Region: NifZ; pfam04319 481448001187 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 481448001188 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 481448001189 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 481448001190 catalytic residue [active] 481448001191 NifQ; Region: NifQ; pfam04891 481448001192 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 481448001193 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 481448001194 active site residue [active] 481448001195 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 481448001196 active site residue [active] 481448001197 Nif-specific regulatory protein; Region: nifA; TIGR01817 481448001198 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 481448001199 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 481448001200 Walker A motif; other site 481448001201 ATP binding site [chemical binding]; other site 481448001202 Walker B motif; other site 481448001203 arginine finger; other site 481448001204 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 481448001205 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 481448001206 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 481448001207 probable nitrogen fixation protein FixT; Region: nifT_nitrog; TIGR02934 481448001208 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 481448001209 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 481448001210 inhibitor-cofactor binding pocket; inhibition site 481448001211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448001212 catalytic residue [active] 481448001213 SIR2-like domain; Region: SIR2_2; pfam13289 481448001214 Nitrogen fixation protein NifW; Region: NifW; pfam03206 481448001215 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 481448001216 Ligand binding site [chemical binding]; other site 481448001217 Electron transfer flavoprotein domain; Region: ETF; pfam01012 481448001218 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 481448001219 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 481448001220 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 481448001221 oxidoreductase; Provisional; Region: PRK10015 481448001222 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 481448001223 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 481448001224 putative amphipathic alpha helix; other site 481448001225 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 481448001226 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 481448001227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 481448001228 NAD(P) binding site [chemical binding]; other site 481448001229 active site 481448001230 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 481448001231 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 481448001232 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 481448001233 5'-3' exonuclease; Region: 53EXOc; smart00475 481448001234 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 481448001235 active site 481448001236 metal binding site 1 [ion binding]; metal-binding site 481448001237 putative 5' ssDNA interaction site; other site 481448001238 metal binding site 3; metal-binding site 481448001239 metal binding site 2 [ion binding]; metal-binding site 481448001240 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 481448001241 putative DNA binding site [nucleotide binding]; other site 481448001242 putative metal binding site [ion binding]; other site 481448001243 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 481448001244 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 481448001245 putative substrate translocation pore; other site 481448001246 Major Facilitator Superfamily; Region: MFS_1; pfam07690 481448001247 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 481448001248 active site 481448001249 putative DNA-binding cleft [nucleotide binding]; other site 481448001250 dimer interface [polypeptide binding]; other site 481448001251 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 481448001252 RuvA N terminal domain; Region: RuvA_N; pfam01330 481448001253 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 481448001254 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 481448001255 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 481448001256 Walker A motif; other site 481448001257 ATP binding site [chemical binding]; other site 481448001258 Walker B motif; other site 481448001259 arginine finger; other site 481448001260 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 481448001261 Uncharacterized conserved protein [Function unknown]; Region: COG0432 481448001262 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 481448001263 active site residue [active] 481448001264 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 481448001265 S-adenosylmethionine binding site [chemical binding]; other site 481448001266 Methyltransferase domain; Region: Methyltransf_31; pfam13847 481448001267 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 481448001268 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 481448001269 Probable Catalytic site; other site 481448001270 metal-binding site 481448001271 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 481448001272 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 481448001273 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 481448001274 active site 481448001275 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 481448001276 extended (e) SDRs; Region: SDR_e; cd08946 481448001277 NAD(P) binding site [chemical binding]; other site 481448001278 active site 481448001279 substrate binding site [chemical binding]; other site 481448001280 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 481448001281 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 481448001282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 481448001283 NAD(P) binding site [chemical binding]; other site 481448001284 active site 481448001285 hydroxyglutarate oxidase; Provisional; Region: PRK11728 481448001286 Predicted dehydrogenase [General function prediction only]; Region: COG0579 481448001287 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 481448001288 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 481448001289 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 481448001290 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 481448001291 FMN binding site [chemical binding]; other site 481448001292 active site 481448001293 substrate binding site [chemical binding]; other site 481448001294 catalytic residue [active] 481448001295 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 481448001296 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 481448001297 catalytic triad [active] 481448001298 hydrogenase 4 subunit B; Validated; Region: PRK06521 481448001299 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 481448001300 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 481448001301 NADH dehydrogenase; Region: NADHdh; cl00469 481448001302 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 481448001303 hydrogenase 4 subunit F; Validated; Region: PRK06458 481448001304 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 481448001305 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 481448001306 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 481448001307 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 481448001308 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 481448001309 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 481448001310 active site 481448001311 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 481448001312 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 481448001313 Probable Catalytic site; other site 481448001314 metal-binding site 481448001315 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 481448001316 S-adenosylmethionine binding site [chemical binding]; other site 481448001317 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 481448001318 active site 481448001319 metal-binding site [ion binding] 481448001320 nucleotide-binding site [chemical binding]; other site 481448001321 peptide modification radical SAM enzyme, YydG family; Region: rSAM_yydG; TIGR04078 481448001322 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 481448001323 FeS/SAM binding site; other site 481448001324 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 481448001325 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448001326 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448001327 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448001328 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448001329 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 481448001330 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 481448001331 active site 481448001332 putative substrate binding region [chemical binding]; other site 481448001333 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 481448001334 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448001335 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 481448001336 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 481448001337 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 481448001338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 481448001339 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 481448001340 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 481448001341 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 481448001342 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 481448001343 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 481448001344 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 481448001345 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 481448001346 active site 481448001347 catalytic site [active] 481448001348 NlpC/P60 family; Region: NLPC_P60; cl17555 481448001349 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 481448001350 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 481448001351 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 481448001352 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 481448001353 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 481448001354 Methyltransferase domain; Region: Methyltransf_31; pfam13847 481448001355 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 481448001356 S-adenosylmethionine binding site [chemical binding]; other site 481448001357 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 481448001358 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 481448001359 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 481448001360 putative metal binding site; other site 481448001361 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_4; cd09619 481448001362 putative ligand binding site [chemical binding]; other site 481448001363 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 481448001364 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 481448001365 putative ligand binding site [chemical binding]; other site 481448001366 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 481448001367 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448001368 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 481448001369 putative ADP-binding pocket [chemical binding]; other site 481448001370 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 481448001371 Methyltransferase domain; Region: Methyltransf_23; pfam13489 481448001372 Methyltransferase domain; Region: Methyltransf_11; pfam08241 481448001373 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448001374 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 481448001375 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 481448001376 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 481448001377 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 481448001378 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 481448001379 active site 481448001380 Methyltransferase domain; Region: Methyltransf_23; pfam13489 481448001381 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 481448001382 S-adenosylmethionine binding site [chemical binding]; other site 481448001383 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448001384 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 481448001385 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 481448001386 O-Antigen ligase; Region: Wzy_C; pfam04932 481448001387 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 481448001388 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 481448001389 Chain length determinant protein; Region: Wzz; cl15801 481448001390 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 481448001391 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 481448001392 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 481448001393 SLBB domain; Region: SLBB; pfam10531 481448001394 SLBB domain; Region: SLBB; pfam10531 481448001395 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 481448001396 Bacterial sugar transferase; Region: Bac_transf; pfam02397 481448001397 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 481448001398 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 481448001399 putative active site pocket [active] 481448001400 dimerization interface [polypeptide binding]; other site 481448001401 putative catalytic residue [active] 481448001402 transcriptional regulator EpsA; Region: EpsA; TIGR03020 481448001403 Autoinducer binding domain; Region: Autoind_bind; pfam03472 481448001404 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 481448001405 DNA binding residues [nucleotide binding] 481448001406 dimerization interface [polypeptide binding]; other site 481448001407 Ycf27; Reviewed; Region: orf27; CHL00148 481448001408 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 481448001409 DNA binding site [nucleotide binding] 481448001410 Gram-negative bacterial tonB protein; Region: TonB; cl10048 481448001411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 481448001412 AAA domain; Region: AAA_33; pfam13671 481448001413 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 481448001414 active site 481448001415 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 481448001416 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 481448001417 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 481448001418 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 481448001419 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 481448001420 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 481448001421 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448001422 DNA binding residues [nucleotide binding] 481448001423 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448001424 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 481448001425 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 481448001426 Outer membrane efflux protein; Region: OEP; pfam02321 481448001427 Outer membrane efflux protein; Region: OEP; pfam02321 481448001428 Outer membrane efflux protein; Region: OEP; pfam02321 481448001429 Outer membrane efflux protein; Region: OEP; pfam02321 481448001430 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 481448001431 catalytic core [active] 481448001432 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 481448001433 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 481448001434 HAMP domain; Region: HAMP; pfam00672 481448001435 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 481448001436 dimer interface [polypeptide binding]; other site 481448001437 phosphorylation site [posttranslational modification] 481448001438 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 481448001439 ATP binding site [chemical binding]; other site 481448001440 Mg2+ binding site [ion binding]; other site 481448001441 G-X-G motif; other site 481448001442 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 481448001443 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 481448001444 active site 481448001445 phosphorylation site [posttranslational modification] 481448001446 intermolecular recognition site; other site 481448001447 dimerization interface [polypeptide binding]; other site 481448001448 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 481448001449 DNA binding site [nucleotide binding] 481448001450 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 481448001451 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 481448001452 catalytic residue [active] 481448001453 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 481448001454 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 481448001455 active site 481448001456 FMN binding site [chemical binding]; other site 481448001457 substrate binding site [chemical binding]; other site 481448001458 homotetramer interface [polypeptide binding]; other site 481448001459 catalytic residue [active] 481448001460 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 481448001461 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 481448001462 substrate binding site [chemical binding]; other site 481448001463 hexamer interface [polypeptide binding]; other site 481448001464 metal binding site [ion binding]; metal-binding site 481448001465 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 481448001466 2-methylcitrate dehydratase; Region: prpD; TIGR02330 481448001467 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 481448001468 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 481448001469 amphipathic channel; other site 481448001470 Asn-Pro-Ala signature motifs; other site 481448001471 PhoD-like phosphatase; Region: PhoD; pfam09423 481448001472 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 481448001473 putative active site [active] 481448001474 putative metal binding site [ion binding]; other site 481448001475 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 481448001476 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 481448001477 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 481448001478 active site 481448001479 DNA binding site [nucleotide binding] 481448001480 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 481448001481 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 481448001482 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 481448001483 putative active site [active] 481448001484 putative metal binding site [ion binding]; other site 481448001485 dap2 (Dipeptidyl aminopeptidase/acylaminoacyl-peptidase) frameshifted; Minf_0619, Minf_0620, Minf_0621 481448001486 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 481448001487 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 481448001488 allantoate amidohydrolase; Reviewed; Region: PRK09290 481448001489 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 481448001490 active site 481448001491 metal binding site [ion binding]; metal-binding site 481448001492 dimer interface [polypeptide binding]; other site 481448001493 phenylhydantoinase; Validated; Region: PRK08323 481448001494 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 481448001495 tetramer interface [polypeptide binding]; other site 481448001496 active site 481448001497 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 481448001498 phosphate binding site [ion binding]; other site 481448001499 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 481448001500 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 481448001501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 481448001502 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 481448001503 active site 481448001504 Protein of unknown function, DUF488; Region: DUF488; pfam04343 481448001505 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 481448001506 TPR repeat; Region: TPR_11; pfam13414 481448001507 binding surface 481448001508 TPR motif; other site 481448001509 TPR repeat; Region: TPR_11; pfam13414 481448001510 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 481448001511 binding surface 481448001512 TPR motif; other site 481448001513 TPR repeat; Region: TPR_11; pfam13414 481448001514 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 481448001515 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 481448001516 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 481448001517 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448001518 DNA binding residues [nucleotide binding] 481448001519 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448001520 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 481448001521 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 481448001522 oligomer interface [polypeptide binding]; other site 481448001523 active site 481448001524 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 481448001525 Amidase; Region: Amidase; pfam01425 481448001526 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 481448001527 putative hydrophobic ligand binding site [chemical binding]; other site 481448001528 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 481448001529 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 481448001530 FeS/SAM binding site; other site 481448001531 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 481448001532 Class III ribonucleotide reductase; Region: RNR_III; cd01675 481448001533 effector binding site; other site 481448001534 active site 481448001535 Zn binding site [ion binding]; other site 481448001536 glycine loop; other site 481448001537 Domain of unknown function DUF302; Region: DUF302; cl01364 481448001538 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 481448001539 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448001540 putative ADP-binding pocket [chemical binding]; other site 481448001541 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 481448001542 catalytic residues [active] 481448001543 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 481448001544 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 481448001545 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 481448001546 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 481448001547 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 481448001548 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 481448001549 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 481448001550 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 481448001551 motif 1; other site 481448001552 active site 481448001553 motif 2; other site 481448001554 motif 3; other site 481448001555 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 481448001556 DHHA1 domain; Region: DHHA1; pfam02272 481448001557 hypothetical protein; Validated; Region: PRK00110 481448001558 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 481448001559 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 481448001560 putative active site [active] 481448001561 putative substrate binding site [chemical binding]; other site 481448001562 catalytic site [active] 481448001563 hypothetical protein; Validated; Region: PRK07411 481448001564 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 481448001565 ATP binding site [chemical binding]; other site 481448001566 substrate interface [chemical binding]; other site 481448001567 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 481448001568 active site residue [active] 481448001569 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 481448001570 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 481448001571 homodimer interface [polypeptide binding]; other site 481448001572 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 481448001573 active site pocket [active] 481448001574 magnesium-transporting ATPase; Provisional; Region: PRK15122 481448001575 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 481448001576 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 481448001577 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 481448001578 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 481448001579 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 481448001580 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 481448001581 putative active site [active] 481448001582 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 481448001583 elongation factor P; Validated; Region: PRK00529 481448001584 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 481448001585 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 481448001586 RNA binding site [nucleotide binding]; other site 481448001587 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 481448001588 RNA binding site [nucleotide binding]; other site 481448001589 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 481448001590 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 481448001591 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448001592 active site 481448001593 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 481448001594 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 481448001595 AsnC family; Region: AsnC_trans_reg; pfam01037 481448001596 hypothetical protein; Validated; Region: PRK07682 481448001597 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 481448001598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448001599 homodimer interface [polypeptide binding]; other site 481448001600 catalytic residue [active] 481448001601 ACT domain-containing protein [General function prediction only]; Region: COG4747 481448001602 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 481448001603 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 481448001604 S-adenosylmethionine synthetase; Validated; Region: PRK05250 481448001605 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 481448001606 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 481448001607 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 481448001608 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 481448001609 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 481448001610 homotetramer interface [polypeptide binding]; other site 481448001611 ligand binding site [chemical binding]; other site 481448001612 catalytic site [active] 481448001613 NAD binding site [chemical binding]; other site 481448001614 Cytochrome c; Region: Cytochrom_C; pfam00034 481448001615 sulfite oxidase; Provisional; Region: PLN00177 481448001616 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 481448001617 Moco binding site; other site 481448001618 metal coordination site [ion binding]; other site 481448001619 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 481448001620 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 481448001621 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 481448001622 S-adenosylmethionine binding site [chemical binding]; other site 481448001623 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 481448001624 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 481448001625 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 481448001626 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 481448001627 S17 interaction site [polypeptide binding]; other site 481448001628 S8 interaction site; other site 481448001629 16S rRNA interaction site [nucleotide binding]; other site 481448001630 streptomycin interaction site [chemical binding]; other site 481448001631 23S rRNA interaction site [nucleotide binding]; other site 481448001632 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 481448001633 30S ribosomal protein S7; Validated; Region: PRK05302 481448001634 elongation factor G; Reviewed; Region: PRK00007 481448001635 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 481448001636 G1 box; other site 481448001637 putative GEF interaction site [polypeptide binding]; other site 481448001638 GTP/Mg2+ binding site [chemical binding]; other site 481448001639 Switch I region; other site 481448001640 G2 box; other site 481448001641 G3 box; other site 481448001642 Switch II region; other site 481448001643 G4 box; other site 481448001644 G5 box; other site 481448001645 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 481448001646 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 481448001647 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 481448001648 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 481448001649 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 481448001650 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 481448001651 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 481448001652 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 481448001653 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 481448001654 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 481448001655 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 481448001656 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 481448001657 putative translocon binding site; other site 481448001658 protein-rRNA interface [nucleotide binding]; other site 481448001659 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 481448001660 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 481448001661 G-X-X-G motif; other site 481448001662 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 481448001663 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 481448001664 23S rRNA interface [nucleotide binding]; other site 481448001665 5S rRNA interface [nucleotide binding]; other site 481448001666 putative antibiotic binding site [chemical binding]; other site 481448001667 L25 interface [polypeptide binding]; other site 481448001668 L27 interface [polypeptide binding]; other site 481448001669 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 481448001670 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 481448001671 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 481448001672 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 481448001673 RNA binding site [nucleotide binding]; other site 481448001674 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 481448001675 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 481448001676 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 481448001677 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 481448001678 Ribosomal protein S8; Region: Ribosomal_S8; pfam00410 481448001679 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 481448001680 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 481448001681 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 481448001682 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 481448001683 23S rRNA interface [nucleotide binding]; other site 481448001684 L21e interface [polypeptide binding]; other site 481448001685 5S rRNA interface [nucleotide binding]; other site 481448001686 L27 interface [polypeptide binding]; other site 481448001687 L5 interface [polypeptide binding]; other site 481448001688 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 481448001689 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 481448001690 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 481448001691 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 481448001692 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 481448001693 SecY translocase; Region: SecY; pfam00344 481448001694 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 481448001695 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448001696 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 481448001697 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 481448001698 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 481448001699 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 481448001700 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 481448001701 putative amphipathic alpha helix; other site 481448001702 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 481448001703 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 481448001704 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 481448001705 classical (c) SDRs; Region: SDR_c; cd05233 481448001706 NAD(P) binding site [chemical binding]; other site 481448001707 active site 481448001708 Tetratricopeptide repeat; Region: TPR_16; pfam13432 481448001709 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 481448001710 binding surface 481448001711 TPR motif; other site 481448001712 Tetratricopeptide repeat; Region: TPR_16; pfam13432 481448001713 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 481448001714 catalytic motif [active] 481448001715 Catalytic residue [active] 481448001716 Proline dehydrogenase; Region: Pro_dh; cl03282 481448001717 delta-1-pyrroline-5-carboxylate dehydrogenase (PutA C-terminal domain); Region: D1pyr5carbox3; TIGR01238 481448001718 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 481448001719 Glutamate binding site [chemical binding]; other site 481448001720 NAD binding site [chemical binding]; other site 481448001721 catalytic residues [active] 481448001722 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 481448001723 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 481448001724 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 481448001725 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 481448001726 FeS/SAM binding site; other site 481448001727 TRAM domain; Region: TRAM; pfam01938 481448001728 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 481448001729 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 481448001730 active site 481448001731 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 481448001732 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 481448001733 dimerization interface [polypeptide binding]; other site 481448001734 ATP binding site [chemical binding]; other site 481448001735 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 481448001736 dimerization interface [polypeptide binding]; other site 481448001737 ATP binding site [chemical binding]; other site 481448001738 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 481448001739 GIY-YIG motif/motif A; other site 481448001740 active site 481448001741 catalytic site [active] 481448001742 putative DNA binding site [nucleotide binding]; other site 481448001743 metal binding site [ion binding]; metal-binding site 481448001744 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 481448001745 Helix-hairpin-helix motif; Region: HHH; pfam00633 481448001746 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 481448001747 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 481448001748 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 481448001749 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 481448001750 DsbD alpha interface [polypeptide binding]; other site 481448001751 catalytic residues [active] 481448001752 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 481448001753 homodimer interface [polypeptide binding]; other site 481448001754 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 481448001755 substrate-cofactor binding pocket; other site 481448001756 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448001757 catalytic residue [active] 481448001758 NAD synthetase; Reviewed; Region: nadE; PRK02628 481448001759 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 481448001760 multimer interface [polypeptide binding]; other site 481448001761 active site 481448001762 catalytic triad [active] 481448001763 protein interface 1 [polypeptide binding]; other site 481448001764 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 481448001765 homodimer interface [polypeptide binding]; other site 481448001766 NAD binding pocket [chemical binding]; other site 481448001767 ATP binding pocket [chemical binding]; other site 481448001768 Mg binding site [ion binding]; other site 481448001769 active-site loop [active] 481448001770 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 481448001771 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK14811 481448001772 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 481448001773 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 481448001774 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 481448001775 Soluble P-type ATPase [General function prediction only]; Region: COG4087 481448001776 peptide ligand binding site [polypeptide binding]; other site 481448001777 Src Homology 3 domain superfamily; Region: SH3; cl17036 481448001778 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 481448001779 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 481448001780 substrate binding site [chemical binding]; other site 481448001781 ligand binding site [chemical binding]; other site 481448001782 threonine synthase; Reviewed; Region: PRK06721 481448001783 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 481448001784 homodimer interface [polypeptide binding]; other site 481448001785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448001786 catalytic residue [active] 481448001787 homoserine dehydrogenase; Provisional; Region: PRK06349 481448001788 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 481448001789 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 481448001790 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 481448001791 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 481448001792 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 481448001793 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 481448001794 trimer interface [polypeptide binding]; other site 481448001795 active site 481448001796 UDP-GlcNAc binding site [chemical binding]; other site 481448001797 lipid binding site [chemical binding]; lipid-binding site 481448001798 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 481448001799 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 481448001800 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 481448001801 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 481448001802 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 481448001803 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 481448001804 Surface antigen; Region: Bac_surface_Ag; pfam01103 481448001805 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 481448001806 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 481448001807 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 481448001808 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 481448001809 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 481448001810 dimer interface [polypeptide binding]; other site 481448001811 ssDNA binding site [nucleotide binding]; other site 481448001812 tetramer (dimer of dimers) interface [polypeptide binding]; other site 481448001813 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 481448001814 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 481448001815 putative active site [active] 481448001816 catalytic residue [active] 481448001817 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 481448001818 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 481448001819 5S rRNA interface [nucleotide binding]; other site 481448001820 CTC domain interface [polypeptide binding]; other site 481448001821 L16 interface [polypeptide binding]; other site 481448001822 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 481448001823 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 481448001824 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 481448001825 Ligand Binding Site [chemical binding]; other site 481448001826 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 481448001827 GAF domain; Region: GAF_3; pfam13492 481448001828 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 481448001829 dimer interface [polypeptide binding]; other site 481448001830 phosphorylation site [posttranslational modification] 481448001831 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 481448001832 ATP binding site [chemical binding]; other site 481448001833 G-X-G motif; other site 481448001834 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 481448001835 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 481448001836 active site 481448001837 phosphorylation site [posttranslational modification] 481448001838 intermolecular recognition site; other site 481448001839 dimerization interface [polypeptide binding]; other site 481448001840 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 481448001841 DNA binding site [nucleotide binding] 481448001842 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 481448001843 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 481448001844 non-specific DNA binding site [nucleotide binding]; other site 481448001845 salt bridge; other site 481448001846 sequence-specific DNA binding site [nucleotide binding]; other site 481448001847 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 481448001848 Methyltransferase domain; Region: Methyltransf_31; pfam13847 481448001849 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 481448001850 S-adenosylmethionine binding site [chemical binding]; other site 481448001851 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 481448001852 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 481448001853 active site 481448001854 hydrophilic channel; other site 481448001855 dimerization interface [polypeptide binding]; other site 481448001856 catalytic residues [active] 481448001857 active site lid [active] 481448001858 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 481448001859 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 481448001860 metal binding triad; other site 481448001861 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 481448001862 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 481448001863 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 481448001864 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 481448001865 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 481448001866 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 481448001867 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 481448001868 dimer interface [polypeptide binding]; other site 481448001869 phosphorylation site [posttranslational modification] 481448001870 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 481448001871 ATP binding site [chemical binding]; other site 481448001872 Mg2+ binding site [ion binding]; other site 481448001873 G-X-G motif; other site 481448001874 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 481448001875 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 481448001876 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 481448001877 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 481448001878 homotrimer interaction site [polypeptide binding]; other site 481448001879 zinc binding site [ion binding]; other site 481448001880 CDP-binding sites; other site 481448001881 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 481448001882 heme-binding site [chemical binding]; other site 481448001883 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 481448001884 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 481448001885 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 481448001886 active site 481448001887 DsrE/DsrF-like family; Region: DrsE; pfam02635 481448001888 FRG domain; Region: FRG; pfam08867 481448001889 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 481448001890 Permease; Region: Permease; pfam02405 481448001891 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 481448001892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448001893 Walker A/P-loop; other site 481448001894 ATP binding site [chemical binding]; other site 481448001895 Q-loop/lid; other site 481448001896 ABC transporter signature motif; other site 481448001897 Walker B; other site 481448001898 D-loop; other site 481448001899 H-loop/switch region; other site 481448001900 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 481448001901 mce related protein; Region: MCE; pfam02470 481448001902 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 481448001903 substrate binding site; other site 481448001904 dimer interface; other site 481448001905 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 481448001906 CHAD domain; Region: CHAD; pfam05235 481448001907 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 481448001908 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 481448001909 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 481448001910 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 481448001911 fumarate hydratase; Reviewed; Region: fumC; PRK00485 481448001912 Class II fumarases; Region: Fumarase_classII; cd01362 481448001913 active site 481448001914 tetramer interface [polypeptide binding]; other site 481448001915 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 481448001916 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 481448001917 active site 481448001918 nucleotide binding site [chemical binding]; other site 481448001919 HIGH motif; other site 481448001920 KMSKS motif; other site 481448001921 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 481448001922 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 481448001923 active site 481448001924 substrate binding site [chemical binding]; other site 481448001925 cosubstrate binding site; other site 481448001926 catalytic site [active] 481448001927 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 481448001928 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 481448001929 generic binding surface II; other site 481448001930 generic binding surface I; other site 481448001931 elongation factor Tu; Reviewed; Region: PRK00049 481448001932 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 481448001933 G1 box; other site 481448001934 GEF interaction site [polypeptide binding]; other site 481448001935 GTP/Mg2+ binding site [chemical binding]; other site 481448001936 Switch I region; other site 481448001937 G2 box; other site 481448001938 G3 box; other site 481448001939 Switch II region; other site 481448001940 G4 box; other site 481448001941 G5 box; other site 481448001942 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 481448001943 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 481448001944 Antibiotic Binding Site [chemical binding]; other site 481448001945 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 481448001946 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 481448001947 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 481448001948 putative homodimer interface [polypeptide binding]; other site 481448001949 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 481448001950 heterodimer interface [polypeptide binding]; other site 481448001951 homodimer interface [polypeptide binding]; other site 481448001952 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 481448001953 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 481448001954 23S rRNA interface [nucleotide binding]; other site 481448001955 L7/L12 interface [polypeptide binding]; other site 481448001956 putative thiostrepton binding site; other site 481448001957 L25 interface [polypeptide binding]; other site 481448001958 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 481448001959 mRNA/rRNA interface [nucleotide binding]; other site 481448001960 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 481448001961 23S rRNA interface [nucleotide binding]; other site 481448001962 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 481448001963 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 481448001964 core dimer interface [polypeptide binding]; other site 481448001965 peripheral dimer interface [polypeptide binding]; other site 481448001966 L10 interface [polypeptide binding]; other site 481448001967 L11 interface [polypeptide binding]; other site 481448001968 putative EF-Tu interaction site [polypeptide binding]; other site 481448001969 putative EF-G interaction site [polypeptide binding]; other site 481448001970 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 481448001971 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 481448001972 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 481448001973 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 481448001974 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 481448001975 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 481448001976 RPB12 interaction site [polypeptide binding]; other site 481448001977 RPB3 interaction site [polypeptide binding]; other site 481448001978 RPB1 interaction site [polypeptide binding]; other site 481448001979 RPB11 interaction site [polypeptide binding]; other site 481448001980 RPB10 interaction site [polypeptide binding]; other site 481448001981 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 481448001982 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 481448001983 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 481448001984 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 481448001985 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 481448001986 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 481448001987 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 481448001988 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 481448001989 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 481448001990 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 481448001991 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 481448001992 DNA binding site [nucleotide binding] 481448001993 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 481448001994 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 481448001995 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 481448001996 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 481448001997 homodimer interface [polypeptide binding]; other site 481448001998 NADP binding site [chemical binding]; other site 481448001999 substrate binding site [chemical binding]; other site 481448002000 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 481448002001 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 481448002002 putative NAD(P) binding site [chemical binding]; other site 481448002003 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 481448002004 gamma-glutamyl kinase; Provisional; Region: PRK05429 481448002005 nucleotide binding site [chemical binding]; other site 481448002006 homotetrameric interface [polypeptide binding]; other site 481448002007 putative phosphate binding site [ion binding]; other site 481448002008 putative allosteric binding site; other site 481448002009 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 481448002010 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 481448002011 putative catalytic cysteine [active] 481448002012 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 481448002013 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 481448002014 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 481448002015 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 481448002016 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 481448002017 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 481448002018 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 481448002019 nucleotide binding site/active site [active] 481448002020 HIT family signature motif; other site 481448002021 catalytic residue [active] 481448002022 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 481448002023 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 481448002024 Ligand binding site; other site 481448002025 Putative Catalytic site; other site 481448002026 DXD motif; other site 481448002027 adenylate kinase; Region: adk; TIGR01351 481448002028 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 481448002029 AMP-binding site [chemical binding]; other site 481448002030 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 481448002031 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 481448002032 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 481448002033 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448002034 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 481448002035 binding surface 481448002036 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 481448002037 TPR motif; other site 481448002038 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 481448002039 binding surface 481448002040 TPR motif; other site 481448002041 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 481448002042 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 481448002043 TPR motif; other site 481448002044 binding surface 481448002045 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 481448002046 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 481448002047 ligand binding site [chemical binding]; other site 481448002048 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 481448002049 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 481448002050 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 481448002051 binding surface 481448002052 TPR motif; other site 481448002053 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 481448002054 binding surface 481448002055 TPR motif; other site 481448002056 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 481448002057 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 481448002058 Part of AAA domain; Region: AAA_19; pfam13245 481448002059 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 481448002060 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 481448002061 active site 481448002062 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 481448002063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 481448002064 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 481448002065 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 481448002066 active site 481448002067 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 481448002068 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 481448002069 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 481448002070 alpha subunit interaction interface [polypeptide binding]; other site 481448002071 Walker A motif; other site 481448002072 ATP binding site [chemical binding]; other site 481448002073 Walker B motif; other site 481448002074 inhibitor binding site; inhibition site 481448002075 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 481448002076 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cl10033 481448002077 LBP interface [polypeptide binding]; other site 481448002078 gamma subunit interface [polypeptide binding]; other site 481448002079 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 481448002080 F0F1 ATP synthase subunit A; Provisional; Region: PRK13420 481448002081 ATP synthase subunit C; Region: ATP-synt_C; cl00466 481448002082 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 481448002083 F0F1 ATP synthase subunit alpha; Provisional; Region: PRK13343 481448002084 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 481448002085 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 481448002086 Walker A motif; other site 481448002087 ATP binding site [chemical binding]; other site 481448002088 Walker B motif; other site 481448002089 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 481448002090 ATP synthase; Region: ATP-synt; pfam00231 481448002091 core domain interface [polypeptide binding]; other site 481448002092 delta subunit interface [polypeptide binding]; other site 481448002093 epsilon subunit interface [polypeptide binding]; other site 481448002094 Domain of unknown function (DUF4338); Region: DUF4338; pfam14236 481448002095 NurA domain; Region: NurA; pfam09376 481448002096 AAA-like domain; Region: AAA_10; pfam12846 481448002097 Domain of unknown function DUF87; Region: DUF87; pfam01935 481448002098 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 481448002099 CRISPR-associated protein Cas2, fragment 481448002100 CRISPR-associated protein Cas2, fragment 481448002101 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 481448002102 CRISPR-associated protein Cas2, fragment 481448002103 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 481448002104 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 481448002105 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 481448002106 CRISPR-associated protein; Region: TIGR03986 481448002107 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 481448002108 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 481448002109 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 481448002110 CRISPR/Cas system-associated RAMP superfamily protein Csx10; Region: Csx10; cl17558 481448002111 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK09344 481448002112 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 481448002113 active site 481448002114 metal-binding site [ion binding] 481448002115 nucleotide-binding site [chemical binding]; other site 481448002116 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 481448002117 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448002118 putative ADP-binding pocket [chemical binding]; other site 481448002119 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 481448002120 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 481448002121 isocitrate lyase; Provisional; Region: PRK15063 481448002122 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 481448002123 tetramer interface [polypeptide binding]; other site 481448002124 active site 481448002125 Mg2+/Mn2+ binding site [ion binding]; other site 481448002126 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 481448002127 malate synthase A; Region: malate_syn_A; TIGR01344 481448002128 active site 481448002129 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 481448002130 FAD binding domain; Region: FAD_binding_4; pfam01565 481448002131 FAD binding domain; Region: FAD_binding_4; pfam01565 481448002132 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 481448002133 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 481448002134 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 481448002135 Cysteine-rich domain; Region: CCG; pfam02754 481448002136 Cysteine-rich domain; Region: CCG; pfam02754 481448002137 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 481448002138 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448002139 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448002140 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 481448002141 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 481448002142 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 481448002143 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 481448002144 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 481448002145 putative substrate translocation pore; other site 481448002146 putative phosphoketolase; Provisional; Region: PRK05261 481448002147 XFP N-terminal domain; Region: XFP_N; pfam09364 481448002148 XFP C-terminal domain; Region: XFP_C; pfam09363 481448002149 DNA topoisomerase III; Validated; Region: PRK08173 481448002150 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 481448002151 active site 481448002152 putative interdomain interaction site [polypeptide binding]; other site 481448002153 putative metal-binding site [ion binding]; other site 481448002154 putative nucleotide binding site [chemical binding]; other site 481448002155 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 481448002156 domain I; other site 481448002157 DNA binding groove [nucleotide binding] 481448002158 phosphate binding site [ion binding]; other site 481448002159 domain II; other site 481448002160 domain III; other site 481448002161 nucleotide binding site [chemical binding]; other site 481448002162 catalytic site [active] 481448002163 domain IV; other site 481448002164 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 481448002165 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 481448002166 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 481448002167 DNA protecting protein DprA; Region: dprA; TIGR00732 481448002168 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 481448002169 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 481448002170 active site 481448002171 dimer interface [polypeptide binding]; other site 481448002172 metal binding site [ion binding]; metal-binding site 481448002173 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 481448002174 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 481448002175 active site 481448002176 PHP Thumb interface [polypeptide binding]; other site 481448002177 metal binding site [ion binding]; metal-binding site 481448002178 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 481448002179 generic binding surface I; other site 481448002180 generic binding surface II; other site 481448002181 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 481448002182 Part of AAA domain; Region: AAA_19; pfam13245 481448002183 Family description; Region: UvrD_C_2; pfam13538 481448002184 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 481448002185 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 481448002186 Walker A/P-loop; other site 481448002187 ATP binding site [chemical binding]; other site 481448002188 Q-loop/lid; other site 481448002189 ABC transporter signature motif; other site 481448002190 Walker B; other site 481448002191 D-loop; other site 481448002192 H-loop/switch region; other site 481448002193 Chlorite dismutase; Region: Chlor_dismutase; cl01280 481448002194 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 481448002195 catalytic residues [active] 481448002196 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 481448002197 active site 481448002198 catalytic residues [active] 481448002199 metal binding site [ion binding]; metal-binding site 481448002200 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448002201 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 481448002202 DNA/RNA-binding repeats in PUR-alpha/beta/gamma and in hypothetical proteins from spirochetes and the Bacteroides-Cytophaga-Flexibacter bacteria; Region: PUR; smart00712 481448002203 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 481448002204 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 481448002205 substrate binding pocket [chemical binding]; other site 481448002206 chain length determination region; other site 481448002207 substrate-Mg2+ binding site; other site 481448002208 catalytic residues [active] 481448002209 aspartate-rich region 1; other site 481448002210 active site lid residues [active] 481448002211 aspartate-rich region 2; other site 481448002212 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 481448002213 Ribonuclease P; Region: Ribonuclease_P; pfam00825 481448002214 Haemolytic domain; Region: Haemolytic; pfam01809 481448002215 membrane protein insertase; Provisional; Region: PRK01318 481448002216 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 481448002217 L-aspartate oxidase; Provisional; Region: PRK06175 481448002218 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 481448002219 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 481448002220 Predicted transcriptional regulators [Transcription]; Region: COG1733 481448002221 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 481448002222 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 481448002223 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 481448002224 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 481448002225 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 481448002226 Cytochrome c; Region: Cytochrom_C; pfam00034 481448002227 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 481448002228 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 481448002229 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 481448002230 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 481448002231 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 481448002232 isocitrate dehydrogenase; Validated; Region: PRK09222 481448002233 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 481448002234 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 481448002235 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 481448002236 AP (apurinic/apyrimidinic) site pocket; other site 481448002237 DNA interaction; other site 481448002238 Metal-binding active site; metal-binding site 481448002239 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 481448002240 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 481448002241 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 481448002242 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 481448002243 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 481448002244 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 481448002245 HSP70 interaction site [polypeptide binding]; other site 481448002246 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 481448002247 substrate binding site [polypeptide binding]; other site 481448002248 dimer interface [polypeptide binding]; other site 481448002249 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 481448002250 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 481448002251 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 481448002252 helix-hairpin-helix signature motif; other site 481448002253 substrate binding pocket [chemical binding]; other site 481448002254 active site 481448002255 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 481448002256 acetylornithine aminotransferase; Provisional; Region: PRK02627 481448002257 inhibitor-cofactor binding pocket; inhibition site 481448002258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448002259 catalytic residue [active] 481448002260 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 481448002261 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 481448002262 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 481448002263 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 481448002264 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 481448002265 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 481448002266 OstA-like protein; Region: OstA; pfam03968 481448002267 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 481448002268 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 481448002269 CTP synthetase; Validated; Region: pyrG; PRK05380 481448002270 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 481448002271 Catalytic site [active] 481448002272 active site 481448002273 UTP binding site [chemical binding]; other site 481448002274 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 481448002275 active site 481448002276 putative oxyanion hole; other site 481448002277 catalytic triad [active] 481448002278 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 481448002279 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 481448002280 Ligand binding site; other site 481448002281 oligomer interface; other site 481448002282 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 481448002283 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 481448002284 active site 481448002285 motif I; other site 481448002286 motif II; other site 481448002287 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 481448002288 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 481448002289 putative ribose interaction site [chemical binding]; other site 481448002290 putative ADP binding site [chemical binding]; other site 481448002291 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 481448002292 Prephenate dehydratase; Region: PDT; pfam00800 481448002293 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 481448002294 putative L-Phe binding site [chemical binding]; other site 481448002295 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 481448002296 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 481448002297 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 481448002298 putative active site; other site 481448002299 catalytic triad [active] 481448002300 putative dimer interface [polypeptide binding]; other site 481448002301 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 481448002302 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 481448002303 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 481448002304 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 481448002305 putative active site [active] 481448002306 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 481448002307 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 481448002308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 481448002309 catalytic residue [active] 481448002310 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 481448002311 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 481448002312 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 481448002313 catalytic residue [active] 481448002314 histidinol-phosphatase; Provisional; Region: PRK07328 481448002315 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 481448002316 active site 481448002317 dimer interface [polypeptide binding]; other site 481448002318 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 481448002319 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 481448002320 GTP binding site; other site 481448002321 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 481448002322 Walker A motif; other site 481448002323 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 481448002324 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 481448002325 dimer interface [polypeptide binding]; other site 481448002326 putative functional site; other site 481448002327 putative MPT binding site; other site 481448002328 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 481448002329 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 481448002330 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 481448002331 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 481448002332 catalytic triad [active] 481448002333 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448002334 DNA binding residues [nucleotide binding] 481448002335 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 481448002336 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 481448002337 catalytic residues [active] 481448002338 catalytic nucleophile [active] 481448002339 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 481448002340 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448002341 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 481448002342 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 481448002343 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 481448002344 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 481448002345 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 481448002346 dimer interface [polypeptide binding]; other site 481448002347 conserved gate region; other site 481448002348 putative PBP binding loops; other site 481448002349 ABC-ATPase subunit interface; other site 481448002350 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448002351 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 481448002352 Walker A/P-loop; other site 481448002353 ATP binding site [chemical binding]; other site 481448002354 Q-loop/lid; other site 481448002355 ABC transporter signature motif; other site 481448002356 Walker B; other site 481448002357 D-loop; other site 481448002358 H-loop/switch region; other site 481448002359 TOBE domain; Region: TOBE; cl01440 481448002360 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 481448002361 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 481448002362 motif II; other site 481448002363 Transmembrane secretion effector; Region: MFS_3; pfam05977 481448002364 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 481448002365 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 481448002366 Trp docking motif [polypeptide binding]; other site 481448002367 dimer interface [polypeptide binding]; other site 481448002368 active site 481448002369 small subunit binding site [polypeptide binding]; other site 481448002370 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 481448002371 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 481448002372 substrate binding pocket [chemical binding]; other site 481448002373 membrane-bound complex binding site; other site 481448002374 hinge residues; other site 481448002375 Cytochrome c; Region: Cytochrom_C; pfam00034 481448002376 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 481448002377 membrane-bound complex binding site; other site 481448002378 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 481448002379 aromatic arch; other site 481448002380 DCoH dimer interaction site [polypeptide binding]; other site 481448002381 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 481448002382 DCoH tetramer interaction site [polypeptide binding]; other site 481448002383 substrate binding site [chemical binding]; other site 481448002384 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 481448002385 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 481448002386 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 481448002387 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 481448002388 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448002389 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 481448002390 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 481448002391 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 481448002392 E3 interaction surface; other site 481448002393 lipoyl attachment site [posttranslational modification]; other site 481448002394 e3 binding domain; Region: E3_binding; pfam02817 481448002395 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 481448002396 TPR repeat; Region: TPR_11; pfam13414 481448002397 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 481448002398 binding surface 481448002399 TPR motif; other site 481448002400 TPR repeat; Region: TPR_11; pfam13414 481448002401 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 481448002402 TPR motif; other site 481448002403 binding surface 481448002404 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 481448002405 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 481448002406 alpha subunit interface [polypeptide binding]; other site 481448002407 TPP binding site [chemical binding]; other site 481448002408 heterodimer interface [polypeptide binding]; other site 481448002409 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 481448002410 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 481448002411 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 481448002412 tetramer interface [polypeptide binding]; other site 481448002413 TPP-binding site [chemical binding]; other site 481448002414 heterodimer interface [polypeptide binding]; other site 481448002415 phosphorylation loop region [posttranslational modification] 481448002416 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 481448002417 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 481448002418 inhibitor-cofactor binding pocket; inhibition site 481448002419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448002420 catalytic residue [active] 481448002421 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 481448002422 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 481448002423 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 481448002424 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 481448002425 Ribosomal protein S18; Region: Ribosomal_S18; pfam01084 481448002426 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 481448002427 Phosphoglucose isomerase; Region: PGI; pfam00342 481448002428 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 481448002429 active site 481448002430 dimer interface [polypeptide binding]; other site 481448002431 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 481448002432 dimer interface [polypeptide binding]; other site 481448002433 active site 481448002434 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 481448002435 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 481448002436 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 481448002437 active site 481448002438 catalytic site [active] 481448002439 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 481448002440 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 481448002441 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 481448002442 catalytic site [active] 481448002443 active site 481448002444 trehalose synthase; Region: treS_nterm; TIGR02456 481448002445 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 481448002446 active site 481448002447 catalytic site [active] 481448002448 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 481448002449 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 481448002450 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 481448002451 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 481448002452 active site 481448002453 phosphorylation site [posttranslational modification] 481448002454 intermolecular recognition site; other site 481448002455 dimerization interface [polypeptide binding]; other site 481448002456 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 481448002457 Walker A motif; other site 481448002458 ATP binding site [chemical binding]; other site 481448002459 Walker B motif; other site 481448002460 arginine finger; other site 481448002461 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 481448002462 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 481448002463 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 481448002464 phosphorylation site [posttranslational modification] 481448002465 dimer interface [polypeptide binding]; other site 481448002466 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 481448002467 ATP binding site [chemical binding]; other site 481448002468 Mg2+ binding site [ion binding]; other site 481448002469 G-X-G motif; other site 481448002470 glycogen branching enzyme; Provisional; Region: PRK12313 481448002471 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 481448002472 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 481448002473 active site 481448002474 catalytic site [active] 481448002475 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 481448002476 manganese transport protein MntH; Reviewed; Region: PRK00701 481448002477 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 481448002478 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 481448002479 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 481448002480 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 481448002481 FeoA domain; Region: FeoA; pfam04023 481448002482 aconitate hydratase; Validated; Region: PRK09277 481448002483 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 481448002484 substrate binding site [chemical binding]; other site 481448002485 ligand binding site [chemical binding]; other site 481448002486 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 481448002487 substrate binding site [chemical binding]; other site 481448002488 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 481448002489 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 481448002490 peptide binding site [polypeptide binding]; other site 481448002491 Preprotein translocase SecG subunit; Region: SecG; pfam03840 481448002492 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 481448002493 triosephosphate isomerase; Provisional; Region: PRK14565 481448002494 substrate binding site [chemical binding]; other site 481448002495 dimer interface [polypeptide binding]; other site 481448002496 catalytic triad [active] 481448002497 Phosphoglycerate kinase; Region: PGK; pfam00162 481448002498 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 481448002499 substrate binding site [chemical binding]; other site 481448002500 hinge regions; other site 481448002501 ADP binding site [chemical binding]; other site 481448002502 catalytic site [active] 481448002503 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 481448002504 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 481448002505 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 481448002506 methionine sulfoxide reductase B; Provisional; Region: PRK00222 481448002507 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 481448002508 methionine sulfoxide reductase A; Provisional; Region: PRK14054 481448002509 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 481448002510 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 481448002511 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 481448002512 Ligand Binding Site [chemical binding]; other site 481448002513 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 481448002514 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 481448002515 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 481448002516 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 481448002517 Walker A motif; other site 481448002518 ATP binding site [chemical binding]; other site 481448002519 Walker B motif; other site 481448002520 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 481448002521 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 481448002522 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 481448002523 oligomer interface [polypeptide binding]; other site 481448002524 active site residues [active] 481448002525 trigger factor; Region: tig; TIGR00115 481448002526 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 481448002527 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 481448002528 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 481448002529 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 481448002530 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448002531 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 481448002532 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 481448002533 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 481448002534 CoA-ligase; Region: Ligase_CoA; pfam00549 481448002535 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 481448002536 CoA binding domain; Region: CoA_binding; smart00881 481448002537 CoA-ligase; Region: Ligase_CoA; pfam00549 481448002538 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 481448002539 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 481448002540 hinge; other site 481448002541 active site 481448002542 cytidylate kinase; Provisional; Region: cmk; PRK00023 481448002543 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 481448002544 CMP-binding site; other site 481448002545 The sites determining sugar specificity; other site 481448002546 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 481448002547 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 481448002548 putative acyl-acceptor binding pocket; other site 481448002549 FeoA domain; Region: FeoA; pfam04023 481448002550 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 481448002551 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 481448002552 G1 box; other site 481448002553 GTP/Mg2+ binding site [chemical binding]; other site 481448002554 Switch I region; other site 481448002555 G2 box; other site 481448002556 G3 box; other site 481448002557 Switch II region; other site 481448002558 G4 box; other site 481448002559 G5 box; other site 481448002560 Nucleoside recognition; Region: Gate; pfam07670 481448002561 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 481448002562 Nucleoside recognition; Region: Gate; pfam07670 481448002563 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 481448002564 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 481448002565 RNA binding site [nucleotide binding]; other site 481448002566 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 481448002567 RNA binding site [nucleotide binding]; other site 481448002568 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 481448002569 RNA binding site [nucleotide binding]; other site 481448002570 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 481448002571 RNA binding site [nucleotide binding]; other site 481448002572 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 481448002573 RNA binding site [nucleotide binding]; other site 481448002574 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 481448002575 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 481448002576 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 481448002577 D-pathway; other site 481448002578 Low-spin heme binding site [chemical binding]; other site 481448002579 Putative water exit pathway; other site 481448002580 Binuclear center (active site) [active] 481448002581 K-pathway; other site 481448002582 Putative proton exit pathway; other site 481448002583 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 481448002584 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 481448002585 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 481448002586 active site 481448002587 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 481448002588 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 481448002589 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 481448002590 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 481448002591 substrate binding site [chemical binding]; other site 481448002592 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 481448002593 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 481448002594 active site residue [active] 481448002595 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 481448002596 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 481448002597 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 481448002598 ATP cone domain; Region: ATP-cone; pfam03477 481448002599 ATP cone domain; Region: ATP-cone; pfam03477 481448002600 Class I ribonucleotide reductase; Region: RNR_I; cd01679 481448002601 active site 481448002602 dimer interface [polypeptide binding]; other site 481448002603 catalytic residues [active] 481448002604 effector binding site; other site 481448002605 R2 peptide binding site; other site 481448002606 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 481448002607 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 481448002608 dimer interface [polypeptide binding]; other site 481448002609 putative radical transfer pathway; other site 481448002610 diiron center [ion binding]; other site 481448002611 tyrosyl radical; other site 481448002612 diaminopimelate decarboxylase; Region: lysA; TIGR01048 481448002613 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 481448002614 active site 481448002615 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 481448002616 substrate binding site [chemical binding]; other site 481448002617 catalytic residues [active] 481448002618 dimer interface [polypeptide binding]; other site 481448002619 Isochorismatase family; Region: Isochorismatase; pfam00857 481448002620 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 481448002621 catalytic triad [active] 481448002622 conserved cis-peptide bond; other site 481448002623 Nitrogen regulatory protein P-II; Region: P-II; cl00412 481448002624 Nitrogen regulatory protein P-II; Region: P-II; smart00938 481448002625 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 481448002626 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 481448002627 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 481448002628 substrate binding site [chemical binding]; other site 481448002629 dimer interface [polypeptide binding]; other site 481448002630 ATP binding site [chemical binding]; other site 481448002631 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 481448002632 OsmC-like protein; Region: OsmC; pfam02566 481448002633 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 481448002634 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 481448002635 Methyltransferase domain; Region: Methyltransf_31; pfam13847 481448002636 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 481448002637 S-adenosylmethionine binding site [chemical binding]; other site 481448002638 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 481448002639 heme-binding site [chemical binding]; other site 481448002640 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 481448002641 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448002642 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 481448002643 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448002644 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448002645 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 481448002646 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 481448002647 iron-sulfur cluster [ion binding]; other site 481448002648 [2Fe-2S] cluster binding site [ion binding]; other site 481448002649 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 481448002650 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448002651 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 481448002652 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 481448002653 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 481448002654 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 481448002655 [4Fe-4S] binding site [ion binding]; other site 481448002656 molybdopterin cofactor binding site; other site 481448002657 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 481448002658 molybdopterin cofactor binding site; other site 481448002659 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 481448002660 heme-binding site [chemical binding]; other site 481448002661 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 481448002662 NMT1-like family; Region: NMT1_2; pfam13379 481448002663 Transcriptional regulator [Transcription]; Region: LysR; COG0583 481448002664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 481448002665 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 481448002666 dimerization interface [polypeptide binding]; other site 481448002667 (2R)-phospho-3-sulfolactate synthase (ComA); Region: ComA; pfam02679 481448002668 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 481448002669 Uncharacterized subfamily of glycoside hydrolase family 57 (GH57); Region: GH57N_like_1; cd10798 481448002670 active site 481448002671 catalytic site [active] 481448002672 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 481448002673 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 481448002674 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 481448002675 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 481448002676 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 481448002677 S-adenosylmethionine binding site [chemical binding]; other site 481448002678 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448002679 active site 481448002680 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 481448002681 dimer interface [polypeptide binding]; other site 481448002682 active site 481448002683 aspartate-rich active site metal binding site; other site 481448002684 allosteric magnesium binding site [ion binding]; other site 481448002685 Schiff base residues; other site 481448002686 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 481448002687 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 481448002688 metal binding triad; other site 481448002689 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 481448002690 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 481448002691 metal binding triad; other site 481448002692 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 481448002693 ribonuclease III; Reviewed; Region: rnc; PRK00102 481448002694 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 481448002695 dimerization interface [polypeptide binding]; other site 481448002696 active site 481448002697 metal binding site [ion binding]; metal-binding site 481448002698 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 481448002699 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 481448002700 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 481448002701 active site 481448002702 DNA binding site [nucleotide binding] 481448002703 Int/Topo IB signature motif; other site 481448002704 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 481448002705 active site 481448002706 Substrate binding site; other site 481448002707 Mg++ binding site; other site 481448002708 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 481448002709 active site 481448002710 dimerization interface [polypeptide binding]; other site 481448002711 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 481448002712 putative active site [active] 481448002713 transaldolase; Provisional; Region: PRK03903 481448002714 catalytic residue [active] 481448002715 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 481448002716 Putative zinc ribbon domain; Region: DUF164; pfam02591 481448002717 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 481448002718 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 481448002719 SmpB-tmRNA interface; other site 481448002720 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 481448002721 DNA binding residues [nucleotide binding] 481448002722 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 481448002723 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448002724 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 481448002725 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 481448002726 purine monophosphate binding site [chemical binding]; other site 481448002727 dimer interface [polypeptide binding]; other site 481448002728 putative catalytic residues [active] 481448002729 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 481448002730 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 481448002731 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 481448002732 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 481448002733 active site 481448002734 PHP-associated; Region: PHP_C; pfam13263 481448002735 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 481448002736 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 481448002737 S-adenosylmethionine binding site [chemical binding]; other site 481448002738 Fe-S metabolism associated domain; Region: SufE; cl00951 481448002739 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 481448002740 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 481448002741 active site residue [active] 481448002742 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 481448002743 active site residue [active] 481448002744 biotin synthase; Region: bioB; TIGR00433 481448002745 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 481448002746 FeS/SAM binding site; other site 481448002747 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 481448002748 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 481448002749 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 481448002750 dimer interface [polypeptide binding]; other site 481448002751 phosphorylation site [posttranslational modification] 481448002752 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 481448002753 ATP binding site [chemical binding]; other site 481448002754 Mg2+ binding site [ion binding]; other site 481448002755 G-X-G motif; other site 481448002756 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 481448002757 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 481448002758 active site 481448002759 phosphorylation site [posttranslational modification] 481448002760 intermolecular recognition site; other site 481448002761 dimerization interface [polypeptide binding]; other site 481448002762 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 481448002763 Walker A motif; other site 481448002764 ATP binding site [chemical binding]; other site 481448002765 Walker B motif; other site 481448002766 arginine finger; other site 481448002767 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 481448002768 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 481448002769 catalytic residues [active] 481448002770 FtsH Extracellular; Region: FtsH_ext; pfam06480 481448002771 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 481448002772 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 481448002773 Walker A motif; other site 481448002774 ATP binding site [chemical binding]; other site 481448002775 Walker B motif; other site 481448002776 arginine finger; other site 481448002777 Peptidase family M41; Region: Peptidase_M41; pfam01434 481448002778 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 481448002779 Fe-S cluster binding site [ion binding]; other site 481448002780 active site 481448002781 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 481448002782 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 481448002783 active site 481448002784 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 481448002785 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 481448002786 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 481448002787 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 481448002788 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 481448002789 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 481448002790 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 481448002791 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 481448002792 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 481448002793 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 481448002794 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 481448002795 Walker A motif; other site 481448002796 ATP binding site [chemical binding]; other site 481448002797 Walker B motif; other site 481448002798 arginine finger; other site 481448002799 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 481448002800 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 481448002801 Walker A motif; other site 481448002802 ATP binding site [chemical binding]; other site 481448002803 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 481448002804 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 481448002805 type II secretion system protein E; Region: type_II_gspE; TIGR02533 481448002806 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 481448002807 Walker A motif; other site 481448002808 ATP binding site [chemical binding]; other site 481448002809 Walker B motif; other site 481448002810 Protein of unknown function (DUF2492); Region: DUF2492; cl11278 481448002811 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 481448002812 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 481448002813 ParB-like nuclease domain; Region: ParB; smart00470 481448002814 DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription]; Region: RpoD; COG0568 481448002815 AAA-like domain; Region: AAA_10; pfam12846 481448002816 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 481448002817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448002818 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 481448002819 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 481448002820 Nitrogen regulatory protein P-II; Region: P-II; smart00938 481448002821 glutamine synthetase, type I; Region: GlnA; TIGR00653 481448002822 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 481448002823 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 481448002824 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448002825 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 481448002826 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 481448002827 active site 481448002828 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 481448002829 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 481448002830 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 481448002831 catalytic residue [active] 481448002832 Protein trafficking PGA2; Region: PGA2; pfam07543 481448002833 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 481448002834 nucleotide binding site/active site [active] 481448002835 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 481448002836 ATP cone domain; Region: ATP-cone; pfam03477 481448002837 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 481448002838 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 481448002839 putative phosphate acyltransferase; Provisional; Region: PRK05331 481448002840 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 481448002841 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 481448002842 dimer interface [polypeptide binding]; other site 481448002843 active site 481448002844 CoA binding pocket [chemical binding]; other site 481448002845 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 481448002846 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 481448002847 metal binding site [ion binding]; metal-binding site 481448002848 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 481448002849 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 481448002850 active site 481448002851 tetramer interface [polypeptide binding]; other site 481448002852 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448002853 active site 481448002854 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 481448002855 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 481448002856 dimerization interface [polypeptide binding]; other site 481448002857 putative ATP binding site [chemical binding]; other site 481448002858 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 481448002859 heme-binding site [chemical binding]; other site 481448002860 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 481448002861 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 481448002862 active site 481448002863 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 481448002864 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 481448002865 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 481448002866 active site 481448002867 DNA binding site [nucleotide binding] 481448002868 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 481448002869 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 481448002870 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 481448002871 catalytic loop [active] 481448002872 iron binding site [ion binding]; other site 481448002873 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 481448002874 4Fe-4S binding domain; Region: Fer4; pfam00037 481448002875 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 481448002876 [4Fe-4S] binding site [ion binding]; other site 481448002877 molybdopterin cofactor binding site; other site 481448002878 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 481448002879 molybdopterin cofactor binding site; other site 481448002880 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 481448002881 putative dimer interface [polypeptide binding]; other site 481448002882 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 481448002883 SLBB domain; Region: SLBB; pfam10531 481448002884 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 481448002885 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 481448002886 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 481448002887 putative dimer interface [polypeptide binding]; other site 481448002888 [2Fe-2S] cluster binding site [ion binding]; other site 481448002889 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 481448002890 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 481448002891 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 481448002892 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 481448002893 PqqA family; Region: PqqA; cl15372 481448002894 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 481448002895 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 481448002896 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 481448002897 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 481448002898 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 481448002899 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 481448002900 FeS/SAM binding site; other site 481448002901 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 481448002902 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 481448002903 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 481448002904 dimer interface [polypeptide binding]; other site 481448002905 PYR/PP interface [polypeptide binding]; other site 481448002906 TPP binding site [chemical binding]; other site 481448002907 substrate binding site [chemical binding]; other site 481448002908 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 481448002909 TPP-binding site [chemical binding]; other site 481448002910 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 481448002911 glycyl-tRNA synthetase; Provisional; Region: PRK04173 481448002912 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 481448002913 dimer interface [polypeptide binding]; other site 481448002914 motif 1; other site 481448002915 active site 481448002916 motif 2; other site 481448002917 motif 3; other site 481448002918 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 481448002919 anticodon binding site; other site 481448002920 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 481448002921 endonuclease IV; Provisional; Region: PRK01060 481448002922 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 481448002923 AP (apurinic/apyrimidinic) site pocket; other site 481448002924 DNA interaction; other site 481448002925 Metal-binding active site; metal-binding site 481448002926 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 481448002927 GSH binding site [chemical binding]; other site 481448002928 catalytic residues [active] 481448002929 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 481448002930 Fe-S cluster binding site [ion binding]; other site 481448002931 DNA binding site [nucleotide binding] 481448002932 active site 481448002933 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 481448002934 nucleoside/Zn binding site; other site 481448002935 dimer interface [polypeptide binding]; other site 481448002936 catalytic motif [active] 481448002937 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 481448002938 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 481448002939 homodimer interface [polypeptide binding]; other site 481448002940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448002941 catalytic residue [active] 481448002942 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 481448002943 MoaE interaction surface [polypeptide binding]; other site 481448002944 MoeB interaction surface [polypeptide binding]; other site 481448002945 thiocarboxylated glycine; other site 481448002946 NIL domain; Region: NIL; cl09633 481448002947 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 481448002948 transcription elongation factor GreA; Region: greA; TIGR01462 481448002949 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 481448002950 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 481448002951 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 481448002952 dimerization interface [polypeptide binding]; other site 481448002953 putative DNA binding site [nucleotide binding]; other site 481448002954 Predicted transcriptional regulator [Transcription]; Region: COG2345 481448002955 putative Zn2+ binding site [ion binding]; other site 481448002956 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 481448002957 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 481448002958 ligand binding site [chemical binding]; other site 481448002959 NAD binding site [chemical binding]; other site 481448002960 dimerization interface [polypeptide binding]; other site 481448002961 catalytic site [active] 481448002962 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 481448002963 putative L-serine binding site [chemical binding]; other site 481448002964 Uncharacterized conserved protein [Function unknown]; Region: COG3189 481448002965 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 481448002966 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 481448002967 catalytic core [active] 481448002968 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 481448002969 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 481448002970 TPP-binding site [chemical binding]; other site 481448002971 dimer interface [polypeptide binding]; other site 481448002972 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 481448002973 PYR/PP interface [polypeptide binding]; other site 481448002974 dimer interface [polypeptide binding]; other site 481448002975 TPP binding site [chemical binding]; other site 481448002976 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 481448002977 phosphoribulokinase; Provisional; Region: PRK07429 481448002978 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 481448002979 active site 481448002980 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 481448002981 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 481448002982 Walker A motif; other site 481448002983 ATP binding site [chemical binding]; other site 481448002984 Walker B motif; other site 481448002985 arginine finger; other site 481448002986 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 481448002987 multimerization interface [polypeptide binding]; other site 481448002988 ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit; Region: rbcL; CHL00040 481448002989 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 481448002990 homodimer interface [polypeptide binding]; other site 481448002991 active site 481448002992 heterodimer interface [polypeptide binding]; other site 481448002993 catalytic residue [active] 481448002994 metal binding site [ion binding]; metal-binding site 481448002995 Class I aldolases; Region: Aldolase_Class_I; cl17187 481448002996 catalytic residue [active] 481448002997 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 481448002998 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 481448002999 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 481448003000 GTPase CgtA; Reviewed; Region: obgE; PRK12299 481448003001 GTP1/OBG; Region: GTP1_OBG; pfam01018 481448003002 Obg GTPase; Region: Obg; cd01898 481448003003 G1 box; other site 481448003004 GTP/Mg2+ binding site [chemical binding]; other site 481448003005 Switch I region; other site 481448003006 G2 box; other site 481448003007 G3 box; other site 481448003008 Switch II region; other site 481448003009 G4 box; other site 481448003010 G5 box; other site 481448003011 hypothetical protein; Reviewed; Region: PRK12497 481448003012 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 481448003013 RNA/DNA hybrid binding site [nucleotide binding]; other site 481448003014 active site 481448003015 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 481448003016 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 481448003017 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 481448003018 signal recognition particle protein; Provisional; Region: PRK10867 481448003019 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 481448003020 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 481448003021 Signal peptide binding domain; Region: SRP_SPB; pfam02978 481448003022 Pup-ligase protein; Region: Pup_ligase; pfam03136 481448003023 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 481448003024 active site 481448003025 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 481448003026 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 481448003027 active site 481448003028 Pup-ligase protein; Region: Pup_ligase; pfam03136 481448003029 proteasome ATPase; Region: pup_AAA; TIGR03689 481448003030 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 481448003031 Walker A motif; other site 481448003032 ATP binding site [chemical binding]; other site 481448003033 Walker B motif; other site 481448003034 arginine finger; other site 481448003035 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 481448003036 active site 481448003037 dimer interface [polypeptide binding]; other site 481448003038 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 481448003039 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 481448003040 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448003041 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 481448003042 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 481448003043 FeS/SAM binding site; other site 481448003044 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 481448003045 protein binding site [polypeptide binding]; other site 481448003046 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 481448003047 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 481448003048 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 481448003049 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 481448003050 active site 481448003051 catalytic tetrad [active] 481448003052 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 481448003053 active site 481448003054 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 481448003055 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 481448003056 dimer interface [polypeptide binding]; other site 481448003057 putative anticodon binding site; other site 481448003058 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 481448003059 motif 1; other site 481448003060 active site 481448003061 motif 2; other site 481448003062 motif 3; other site 481448003063 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 481448003064 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 481448003065 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 481448003066 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 481448003067 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 481448003068 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 481448003069 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 481448003070 catalytic core [active] 481448003071 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 481448003072 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 481448003073 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 481448003074 Soluble P-type ATPase [General function prediction only]; Region: COG4087 481448003075 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 481448003076 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 481448003077 hydrogenase 1 large subunit; Provisional; Region: PRK10170 481448003078 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 481448003079 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 481448003080 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 481448003081 formate dehydrogenase; Provisional; Region: PRK07574 481448003082 NAD-dependent Formate Dehydrogenase (FDH); Region: FDH; cd05302 481448003083 dimerization interface [polypeptide binding]; other site 481448003084 ligand binding site [chemical binding]; other site 481448003085 NAD binding site [chemical binding]; other site 481448003086 catalytic site [active] 481448003087 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 481448003088 Uncharacterized conserved protein [Function unknown]; Region: COG3287 481448003089 FIST N domain; Region: FIST; pfam08495 481448003090 FIST C domain; Region: FIST_C; pfam10442 481448003091 Predicted integral membrane protein [Function unknown]; Region: COG5652 481448003092 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 481448003093 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 481448003094 dimer interface [polypeptide binding]; other site 481448003095 putative metal binding site [ion binding]; other site 481448003096 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 481448003097 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 481448003098 active site 481448003099 catalytic site [active] 481448003100 Uncharacterized subfamily of glycoside hydrolase family 57 (GH57); Region: GH57N_like_1; cd10798 481448003101 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 481448003102 active site 481448003103 catalytic site [active] 481448003104 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 481448003105 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448003106 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 481448003107 homodimer interface [polypeptide binding]; other site 481448003108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448003109 catalytic residue [active] 481448003110 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 481448003111 ArsC family; Region: ArsC; pfam03960 481448003112 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 481448003113 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448003114 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003115 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003116 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448003117 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003118 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003119 Predicted acetyltransferase [General function prediction only]; Region: COG2388 481448003120 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448003121 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003122 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 481448003123 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 481448003124 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 481448003125 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 481448003126 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 481448003127 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 481448003128 minor groove reading motif; other site 481448003129 helix-hairpin-helix signature motif; other site 481448003130 substrate binding pocket [chemical binding]; other site 481448003131 active site 481448003132 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 481448003133 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 481448003134 DNA binding and oxoG recognition site [nucleotide binding] 481448003135 ribonuclease HIII; Provisional; Region: PRK00996 481448003136 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 481448003137 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 481448003138 RNA/DNA hybrid binding site [nucleotide binding]; other site 481448003139 active site 481448003140 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 481448003141 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 481448003142 ssDNA binding site; other site 481448003143 generic binding surface II; other site 481448003144 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 481448003145 ATP binding site [chemical binding]; other site 481448003146 putative Mg++ binding site [ion binding]; other site 481448003147 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 481448003148 nucleotide binding region [chemical binding]; other site 481448003149 ATP-binding site [chemical binding]; other site 481448003150 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 481448003151 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 481448003152 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 481448003153 protein binding site [polypeptide binding]; other site 481448003154 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 481448003155 protein binding site [polypeptide binding]; other site 481448003156 Rhomboid family; Region: Rhomboid; cl11446 481448003157 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 481448003158 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 481448003159 active site 481448003160 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 481448003161 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 481448003162 active site 481448003163 (T/H)XGH motif; other site 481448003164 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 481448003165 Ion channel; Region: Ion_trans_2; pfam07885 481448003166 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 481448003167 TrkA-N domain; Region: TrkA_N; pfam02254 481448003168 TrkA-C domain; Region: TrkA_C; pfam02080 481448003169 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 481448003170 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 481448003171 NAD binding site [chemical binding]; other site 481448003172 putative substrate binding site 2 [chemical binding]; other site 481448003173 putative substrate binding site 1 [chemical binding]; other site 481448003174 active site 481448003175 UGMP family protein; Validated; Region: PRK09604 481448003176 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 481448003177 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 481448003178 active site 481448003179 multimer interface [polypeptide binding]; other site 481448003180 aspartate aminotransferase; Provisional; Region: PRK05764 481448003181 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 481448003182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448003183 homodimer interface [polypeptide binding]; other site 481448003184 catalytic residue [active] 481448003185 Domain of unknown function (DUF202); Region: DUF202; pfam02656 481448003186 malate dehydrogenase; Reviewed; Region: PRK06223 481448003187 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 481448003188 NAD(P) binding site [chemical binding]; other site 481448003189 dimer interface [polypeptide binding]; other site 481448003190 tetramer (dimer of dimers) interface [polypeptide binding]; other site 481448003191 substrate binding site [chemical binding]; other site 481448003192 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 481448003193 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 481448003194 Peptidase family M50; Region: Peptidase_M50; pfam02163 481448003195 active site 481448003196 putative substrate binding region [chemical binding]; other site 481448003197 antiporter inner membrane protein; Provisional; Region: PRK11670 481448003198 Domain of unknown function DUF59; Region: DUF59; pfam01883 481448003199 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 481448003200 Walker A motif; other site 481448003201 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 481448003202 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 481448003203 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 481448003204 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 481448003205 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 481448003206 Walker A/P-loop; other site 481448003207 ATP binding site [chemical binding]; other site 481448003208 Q-loop/lid; other site 481448003209 ABC transporter signature motif; other site 481448003210 Walker B; other site 481448003211 D-loop; other site 481448003212 H-loop/switch region; other site 481448003213 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 481448003214 putative active site [active] 481448003215 dimerization interface [polypeptide binding]; other site 481448003216 putative tRNAtyr binding site [nucleotide binding]; other site 481448003217 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 481448003218 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 481448003219 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 481448003220 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 481448003221 phosphate binding site [ion binding]; other site 481448003222 TPR repeat; Region: TPR_11; pfam13414 481448003223 TPR repeat; Region: TPR_11; pfam13414 481448003224 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 481448003225 binding surface 481448003226 TPR motif; other site 481448003227 TPR repeat; Region: TPR_11; pfam13414 481448003228 TPR repeat; Region: TPR_11; pfam13414 481448003229 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 481448003230 binding surface 481448003231 TPR motif; other site 481448003232 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448003233 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003234 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003235 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 481448003236 Protein export membrane protein; Region: SecD_SecF; cl14618 481448003237 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 481448003238 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 481448003239 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 481448003240 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 481448003241 DNA binding residues [nucleotide binding] 481448003242 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 481448003243 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 481448003244 Zn2+ binding site [ion binding]; other site 481448003245 Mg2+ binding site [ion binding]; other site 481448003246 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 481448003247 ATP binding site [chemical binding]; other site 481448003248 active site 481448003249 substrate binding site [chemical binding]; other site 481448003250 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 481448003251 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 481448003252 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 481448003253 active site 481448003254 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 481448003255 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 481448003256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448003257 Walker A/P-loop; other site 481448003258 ATP binding site [chemical binding]; other site 481448003259 Q-loop/lid; other site 481448003260 ABC transporter signature motif; other site 481448003261 Walker B; other site 481448003262 D-loop; other site 481448003263 H-loop/switch region; other site 481448003264 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 481448003265 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 481448003266 non-specific DNA binding site [nucleotide binding]; other site 481448003267 salt bridge; other site 481448003268 sequence-specific DNA binding site [nucleotide binding]; other site 481448003269 PBP superfamily domain; Region: PBP_like; pfam12727 481448003270 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 481448003271 Tubulin/FtsZ family, GTPase domain; Region: Tubulin; pfam00091 481448003272 nucleotide binding site [chemical binding]; other site 481448003273 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 481448003274 Cell division protein FtsA; Region: FtsA; smart00842 481448003275 Cell division protein FtsA; Region: FtsA; pfam14450 481448003276 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 481448003277 Cell division protein FtsQ; Region: FtsQ; pfam03799 481448003278 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 481448003279 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 481448003280 ATP-grasp domain; Region: ATP-grasp_4; cl17255 481448003281 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 481448003282 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 481448003283 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 481448003284 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 481448003285 FAD binding domain; Region: FAD_binding_4; pfam01565 481448003286 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 481448003287 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 481448003288 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 481448003289 active site 481448003290 homodimer interface [polypeptide binding]; other site 481448003291 cell division protein FtsW; Region: ftsW; TIGR02614 481448003292 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 481448003293 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 481448003294 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 481448003295 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 481448003296 Mg++ binding site [ion binding]; other site 481448003297 putative catalytic motif [active] 481448003298 putative substrate binding site [chemical binding]; other site 481448003299 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 481448003300 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 481448003301 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 481448003302 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 481448003303 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 481448003304 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 481448003305 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 481448003306 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 481448003307 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 481448003308 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 481448003309 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 481448003310 MraW methylase family; Region: Methyltransf_5; cl17771 481448003311 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 481448003312 mraZ protein; Region: TIGR00242 481448003313 MraZ protein; Region: MraZ; pfam02381 481448003314 MraZ protein; Region: MraZ; pfam02381 481448003315 Putative glucose-1-phosphate thymidylyltransferase, C-terminal Left-handed parallel beta-Helix (LbH) domain: Proteins in this family show simlarity to glucose-1-phosphate adenylyltransferases in that they contain N-terminal catalytic domains that...; Region: LbH_G1P_TT_C_like; cd05636 481448003316 Aerotolerance regulator N-terminal; Region: BatA; cl06567 481448003317 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 481448003318 metal ion-dependent adhesion site (MIDAS); other site 481448003319 Protein of unknown function DUF58; Region: DUF58; pfam01882 481448003320 MoxR-like ATPases [General function prediction only]; Region: COG0714 481448003321 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 481448003322 Walker A motif; other site 481448003323 ATP binding site [chemical binding]; other site 481448003324 Walker B motif; other site 481448003325 arginine finger; other site 481448003326 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 481448003327 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 481448003328 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 481448003329 UbiA prenyltransferase family; Region: UbiA; pfam01040 481448003330 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 481448003331 TPR motif; other site 481448003332 binding surface 481448003333 Aspartyl protease; Region: Asp_protease_2; pfam13650 481448003334 inhibitor binding site; inhibition site 481448003335 catalytic motif [active] 481448003336 Catalytic residue [active] 481448003337 Active site flap [active] 481448003338 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 481448003339 inhibitor binding site; inhibition site 481448003340 catalytic motif [active] 481448003341 Catalytic residue [active] 481448003342 Active site flap [active] 481448003343 Isochorismatase family; Region: Isochorismatase; pfam00857 481448003344 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 481448003345 catalytic triad [active] 481448003346 conserved cis-peptide bond; other site 481448003347 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 481448003348 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 481448003349 G1 box; other site 481448003350 putative GEF interaction site [polypeptide binding]; other site 481448003351 GTP/Mg2+ binding site [chemical binding]; other site 481448003352 Switch I region; other site 481448003353 G2 box; other site 481448003354 G3 box; other site 481448003355 Switch II region; other site 481448003356 G4 box; other site 481448003357 G5 box; other site 481448003358 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 481448003359 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 481448003360 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 481448003361 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 481448003362 RmuC family; Region: RmuC; pfam02646 481448003363 polyphosphate kinase; Provisional; Region: PRK05443 481448003364 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 481448003365 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 481448003366 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 481448003367 putative domain interface [polypeptide binding]; other site 481448003368 putative active site [active] 481448003369 catalytic site [active] 481448003370 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 481448003371 putative domain interface [polypeptide binding]; other site 481448003372 putative active site [active] 481448003373 catalytic site [active] 481448003374 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 481448003375 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 481448003376 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 481448003377 alphaNTD - beta interaction site [polypeptide binding]; other site 481448003378 alphaNTD homodimer interface [polypeptide binding]; other site 481448003379 alphaNTD - beta' interaction site [polypeptide binding]; other site 481448003380 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 481448003381 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 481448003382 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 481448003383 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 481448003384 RNA binding surface [nucleotide binding]; other site 481448003385 30S ribosomal protein S11; Validated; Region: PRK05309 481448003386 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 481448003387 30S ribosomal protein S13; Region: bact_S13; TIGR03631 481448003388 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 481448003389 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 481448003390 active site 481448003391 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 481448003392 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 481448003393 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 481448003394 active site 481448003395 HIGH motif; other site 481448003396 KMSK motif region; other site 481448003397 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 481448003398 tRNA binding surface [nucleotide binding]; other site 481448003399 anticodon binding site; other site 481448003400 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 481448003401 PAS domain; Region: PAS_9; pfam13426 481448003402 putative active site [active] 481448003403 heme pocket [chemical binding]; other site 481448003404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 481448003405 Histidine kinase; Region: HisKA_3; pfam07730 481448003406 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 481448003407 ATP binding site [chemical binding]; other site 481448003408 Mg2+ binding site [ion binding]; other site 481448003409 G-X-G motif; other site 481448003410 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 481448003411 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 481448003412 active site 481448003413 phosphorylation site [posttranslational modification] 481448003414 intermolecular recognition site; other site 481448003415 dimerization interface [polypeptide binding]; other site 481448003416 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 481448003417 DNA binding residues [nucleotide binding] 481448003418 dimerization interface [polypeptide binding]; other site 481448003419 Protein of unknown function (DUF763); Region: DUF763; pfam05559 481448003420 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 481448003421 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 481448003422 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 481448003423 inhibitor-cofactor binding pocket; inhibition site 481448003424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448003425 catalytic residue [active] 481448003426 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 481448003427 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 481448003428 substrate-cofactor binding pocket; other site 481448003429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448003430 catalytic residue [active] 481448003431 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 481448003432 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 481448003433 active site 481448003434 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 481448003435 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 481448003436 active site 481448003437 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 481448003438 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 481448003439 metal-binding site [ion binding] 481448003440 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 481448003441 Soluble P-type ATPase [General function prediction only]; Region: COG4087 481448003442 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 481448003443 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 481448003444 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 481448003445 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 481448003446 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 481448003447 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 481448003448 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 481448003449 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 481448003450 Multicopper oxidase; Region: Cu-oxidase; pfam00394 481448003451 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 481448003452 The SYLF domain (also called DUF500), a novel lipid-binding module, of SH3 domain containing Ysc84-like 1 (SH3YL1) and similar proteins; Region: SYLF_SH3YL1_like; cd11525 481448003453 putative amphipathic alpha helix; other site 481448003454 putative lipid binding residues [chemical binding]; other site 481448003455 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 481448003456 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 481448003457 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 481448003458 Walker A/P-loop; other site 481448003459 ATP binding site [chemical binding]; other site 481448003460 Q-loop/lid; other site 481448003461 ABC transporter signature motif; other site 481448003462 Walker B; other site 481448003463 D-loop; other site 481448003464 H-loop/switch region; other site 481448003465 acyl-CoA esterase; Provisional; Region: PRK10673 481448003466 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 481448003467 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 481448003468 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 481448003469 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448003470 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003471 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448003472 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 481448003473 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 481448003474 ligand binding site [chemical binding]; other site 481448003475 homodimer interface [polypeptide binding]; other site 481448003476 NAD(P) binding site [chemical binding]; other site 481448003477 trimer interface B [polypeptide binding]; other site 481448003478 trimer interface A [polypeptide binding]; other site 481448003479 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 481448003480 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 481448003481 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 481448003482 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 481448003483 heme-binding site [chemical binding]; other site 481448003484 Protein of unknown function (DUF2838); Region: DUF2838; pfam10998 481448003485 PBP superfamily domain; Region: PBP_like_2; cl17296 481448003486 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 481448003487 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 481448003488 ligand binding site [chemical binding]; other site 481448003489 Tubulin like; Region: Tubulin_2; pfam13809 481448003490 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 481448003491 TPR motif; other site 481448003492 binding surface 481448003493 TPR repeat; Region: TPR_11; pfam13414 481448003494 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 481448003495 binding surface 481448003496 TPR motif; other site 481448003497 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 481448003498 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 481448003499 putative active site [active] 481448003500 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 481448003501 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 481448003502 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 481448003503 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; cl04829 481448003504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 481448003505 Probable transposase; Region: OrfB_IS605; pfam01385 481448003506 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 481448003507 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 481448003508 Ammonia monooxygenase; Region: AMO; pfam02461 481448003509 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; cl04829 481448003510 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 481448003511 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 481448003512 Ammonia monooxygenase; Region: AMO; pfam02461 481448003513 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; cl04829 481448003514 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 481448003515 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 481448003516 active site 481448003517 phosphorylation site [posttranslational modification] 481448003518 intermolecular recognition site; other site 481448003519 dimerization interface [polypeptide binding]; other site 481448003520 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 481448003521 DNA binding residues [nucleotide binding] 481448003522 dimerization interface [polypeptide binding]; other site 481448003523 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 481448003524 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 481448003525 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 481448003526 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 481448003527 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 481448003528 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448003529 Walker A/P-loop; other site 481448003530 ATP binding site [chemical binding]; other site 481448003531 Q-loop/lid; other site 481448003532 ABC transporter signature motif; other site 481448003533 Walker B; other site 481448003534 D-loop; other site 481448003535 H-loop/switch region; other site 481448003536 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 481448003537 Walker A/P-loop; other site 481448003538 ATP binding site [chemical binding]; other site 481448003539 Q-loop/lid; other site 481448003540 ABC transporter signature motif; other site 481448003541 Walker B; other site 481448003542 D-loop; other site 481448003543 H-loop/switch region; other site 481448003544 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448003545 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448003546 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 481448003547 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 481448003548 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 481448003549 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 481448003550 putative active site [active] 481448003551 putative metal binding site [ion binding]; other site 481448003552 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 481448003553 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 481448003554 DXD motif; other site 481448003555 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 481448003556 lipoyl synthase; Provisional; Region: PRK05481 481448003557 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 481448003558 FeS/SAM binding site; other site 481448003559 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448003560 DNA binding residues [nucleotide binding] 481448003561 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 481448003562 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 481448003563 catalytic residues [active] 481448003564 catalytic nucleophile [active] 481448003565 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 481448003566 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 481448003567 Probable transposase; Region: OrfB_IS605; pfam01385 481448003568 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 481448003569 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 481448003570 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 481448003571 active site 481448003572 metal binding site [ion binding]; metal-binding site 481448003573 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 481448003574 Beta-lactamase; Region: Beta-lactamase; pfam00144 481448003575 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 481448003576 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 481448003577 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 481448003578 inhibitor-cofactor binding pocket; inhibition site 481448003579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448003580 catalytic residue [active] 481448003581 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 481448003582 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448003583 DNA binding residues [nucleotide binding] 481448003584 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448003585 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 481448003586 argininosuccinate synthase; Provisional; Region: PRK13820 481448003587 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 481448003588 ANP binding site [chemical binding]; other site 481448003589 Substrate Binding Site II [chemical binding]; other site 481448003590 Substrate Binding Site I [chemical binding]; other site 481448003591 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 481448003592 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 481448003593 TPP-binding site; other site 481448003594 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 481448003595 PYR/PP interface [polypeptide binding]; other site 481448003596 dimer interface [polypeptide binding]; other site 481448003597 TPP binding site [chemical binding]; other site 481448003598 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 481448003599 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 481448003600 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 481448003601 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 481448003602 active site 481448003603 HIGH motif; other site 481448003604 nucleotide binding site [chemical binding]; other site 481448003605 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 481448003606 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 481448003607 active site 481448003608 KMSKS motif; other site 481448003609 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 481448003610 tRNA binding surface [nucleotide binding]; other site 481448003611 anticodon binding site; other site 481448003612 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 481448003613 hexamer interface [polypeptide binding]; other site 481448003614 DNA repair and recombination protein RadB; Provisional; Region: radB; PRK09361 481448003615 Walker A motif; other site 481448003616 ATP binding site [chemical binding]; other site 481448003617 Walker B motif; other site 481448003618 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 481448003619 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 481448003620 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 481448003621 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 481448003622 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 481448003623 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 481448003624 DNA binding residues [nucleotide binding] 481448003625 DNA primase; Validated; Region: dnaG; PRK05667 481448003626 CHC2 zinc finger; Region: zf-CHC2; cl17510 481448003627 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 481448003628 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 481448003629 active site 481448003630 metal binding site [ion binding]; metal-binding site 481448003631 interdomain interaction site; other site 481448003632 Domain of unknown function (DUF362); Region: DUF362; pfam04015 481448003633 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 481448003634 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 481448003635 homodimer interface [polypeptide binding]; other site 481448003636 metal binding site [ion binding]; metal-binding site 481448003637 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 481448003638 homodimer interface [polypeptide binding]; other site 481448003639 active site 481448003640 putative chemical substrate binding site [chemical binding]; other site 481448003641 metal binding site [ion binding]; metal-binding site 481448003642 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 481448003643 active site 481448003644 Zn binding site [ion binding]; other site 481448003645 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 481448003646 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 481448003647 putative acyl-acceptor binding pocket; other site 481448003648 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 481448003649 competence damage-inducible protein A; Provisional; Region: PRK00549 481448003650 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 481448003651 putative MPT binding site; other site 481448003652 Competence-damaged protein; Region: CinA; pfam02464 481448003653 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 481448003654 DEAD/DEAH box helicase; Region: DEAD; pfam00270 481448003655 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 481448003656 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 481448003657 nucleotide binding region [chemical binding]; other site 481448003658 ATP-binding site [chemical binding]; other site 481448003659 SEC-C motif; Region: SEC-C; pfam02810 481448003660 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 481448003661 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 481448003662 protein binding site [polypeptide binding]; other site 481448003663 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 481448003664 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 481448003665 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 481448003666 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 481448003667 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 481448003668 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 481448003669 catalytic site [active] 481448003670 subunit interface [polypeptide binding]; other site 481448003671 dihydroorotase; Validated; Region: pyrC; PRK09357 481448003672 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 481448003673 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 481448003674 active site 481448003675 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 481448003676 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 481448003677 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 481448003678 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 481448003679 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 481448003680 substrate binding site [chemical binding]; other site 481448003681 tartrate dehydrogenase; Region: TTC; TIGR02089 481448003682 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 481448003683 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 481448003684 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 481448003685 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 481448003686 Sulfate transporter family; Region: Sulfate_transp; pfam00916 481448003687 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 481448003688 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 481448003689 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 481448003690 active site 481448003691 HIGH motif; other site 481448003692 dimer interface [polypeptide binding]; other site 481448003693 KMSKS motif; other site 481448003694 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 481448003695 RNA binding surface [nucleotide binding]; other site 481448003696 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 481448003697 Protein of unknown function (DUF525); Region: DUF525; cl01119 481448003698 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 481448003699 substrate binding site [chemical binding]; other site 481448003700 dimer interface [polypeptide binding]; other site 481448003701 ATP binding site [chemical binding]; other site 481448003702 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 481448003703 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 481448003704 putative NAD(P) binding site [chemical binding]; other site 481448003705 Lipopolysaccharide-assembly; Region: LptE; pfam04390 481448003706 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 481448003707 Tetratricopeptide repeat; Region: TPR_6; pfam13174 481448003708 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 481448003709 Tetratricopeptide repeat; Region: TPR_6; pfam13174 481448003710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 481448003711 Uncharacterized conserved protein [Function unknown]; Region: COG1543 481448003712 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 481448003713 active site 481448003714 substrate binding site [chemical binding]; other site 481448003715 catalytic site [active] 481448003716 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 481448003717 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 481448003718 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 481448003719 Low molecular weight phosphatase family; Region: LMWPc; cd00115 481448003720 active site 481448003721 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 481448003722 dimerization interface [polypeptide binding]; other site 481448003723 putative DNA binding site [nucleotide binding]; other site 481448003724 putative Zn2+ binding site [ion binding]; other site 481448003725 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 481448003726 arsenical-resistance protein; Region: acr3; TIGR00832 481448003727 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 481448003728 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 481448003729 Walker A motif; other site 481448003730 ATP binding site [chemical binding]; other site 481448003731 Walker B motif; other site 481448003732 arginine finger; other site 481448003733 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 481448003734 DNA-binding interface [nucleotide binding]; DNA binding site 481448003735 phosphoenolpyruvate synthase; Validated; Region: PRK06464 481448003736 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 481448003737 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 481448003738 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 481448003739 methane monooxygenase/ammonia monooxygenase, subunit B; Region: CH4_NH3mon_ox_B; TIGR03079 481448003740 Monooxygenase subunit B protein; Region: Monooxygenase_B; pfam04744 481448003741 Ammonia monooxygenase; Region: AMO; pfam02461 481448003742 Ammonia monooxygenase/methane monooxygenase, subunit C; Region: AmoC; cl04829 481448003743 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 481448003744 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 481448003745 active site 481448003746 metal binding site [ion binding]; metal-binding site 481448003747 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 481448003748 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 481448003749 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 481448003750 FAD binding domain; Region: FAD_binding_4; pfam01565 481448003751 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 481448003752 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 481448003753 Cysteine-rich domain; Region: CCG; pfam02754 481448003754 Cysteine-rich domain; Region: CCG; pfam02754 481448003755 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 481448003756 heme-binding residues [chemical binding]; other site 481448003757 GYD domain; Region: GYD; cl01743 481448003758 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 481448003759 Active_site [active] 481448003760 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 481448003761 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448003762 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 481448003763 Active_site [active] 481448003764 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 481448003765 This group of endopeptidases include HupW enzymes that are specific to the cyanobacterial hydrogenase and are involved in the C-terminal cleavage of the hydrogenase large subunit precursor protein. Cyanobacterial nickel-iron (NiFe)-hydrogenases are found...; Region: H2MP_Cyano-H2up; cd06063 481448003766 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 481448003767 nickel binding site [ion binding]; other site 481448003768 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 481448003769 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 481448003770 Ligand binding site; other site 481448003771 DXD motif; other site 481448003772 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 481448003773 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 481448003774 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 481448003775 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 481448003776 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 481448003777 Uncharacterized conserved protein [Function unknown]; Region: COG1656 481448003778 Protein of unknown function DUF82; Region: DUF82; pfam01927 481448003779 Thioredoxin; Region: Thioredoxin_4; pfam13462 481448003780 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 481448003781 Peptidase family M48; Region: Peptidase_M48; pfam01435 481448003782 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 481448003783 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 481448003784 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 481448003785 FAD binding site [chemical binding]; other site 481448003786 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 481448003787 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 481448003788 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 481448003789 motif II; other site 481448003790 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 481448003791 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 481448003792 dimer interface [polypeptide binding]; other site 481448003793 putative PBP binding regions; other site 481448003794 ABC-ATPase subunit interface; other site 481448003795 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 481448003796 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 481448003797 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 481448003798 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 481448003799 intersubunit interface [polypeptide binding]; other site 481448003800 Cobalamin biosynthesis protein CobN and related Mg-chelatases [Coenzyme metabolism]; Region: CobN; COG1429 481448003801 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 481448003802 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 481448003803 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 481448003804 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 481448003805 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 481448003806 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 481448003807 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 481448003808 Polymerase and Histidinol Phosphatase domain of Thermotoga like; Region: PHP_HisPPase_Thermotoga_like; cd12111 481448003809 PHP domain; Region: PHP; pfam02811 481448003810 active site 481448003811 dimer interface [polypeptide binding]; other site 481448003812 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 481448003813 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 481448003814 NAD binding site [chemical binding]; other site 481448003815 homotetramer interface [polypeptide binding]; other site 481448003816 homodimer interface [polypeptide binding]; other site 481448003817 substrate binding site [chemical binding]; other site 481448003818 active site 481448003819 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 481448003820 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 481448003821 motif II; other site 481448003822 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 481448003823 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 481448003824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 481448003825 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 481448003826 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 481448003827 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 481448003828 active site 481448003829 HIGH motif; other site 481448003830 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 481448003831 KMSKS motif; other site 481448003832 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 481448003833 thymidylate kinase; Validated; Region: tmk; PRK00698 481448003834 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 481448003835 TMP-binding site; other site 481448003836 ATP-binding site [chemical binding]; other site 481448003837 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 481448003838 DNA polymerase III subunit delta'; Validated; Region: PRK08485 481448003839 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 481448003840 carboxyltransferase (CT) interaction site; other site 481448003841 biotinylation site [posttranslational modification]; other site 481448003842 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 481448003843 dimer interface [polypeptide binding]; other site 481448003844 active site 481448003845 Predicted permeases [General function prediction only]; Region: COG0795 481448003846 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 481448003847 SurA N-terminal domain; Region: SurA_N_3; cl07813 481448003848 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 481448003849 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 481448003850 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 481448003851 putative active site [active] 481448003852 catalytic triad [active] 481448003853 putative dimer interface [polypeptide binding]; other site 481448003854 Predicted membrane protein [Function unknown]; Region: COG3431 481448003855 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 481448003856 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 481448003857 Sel1-like repeats; Region: SEL1; smart00671 481448003858 Sel1-like repeats; Region: SEL1; smart00671 481448003859 Sel1-like repeats; Region: SEL1; smart00671 481448003860 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 481448003861 Sel1-like repeats; Region: SEL1; smart00671 481448003862 Sel1-like repeats; Region: SEL1; smart00671 481448003863 Sel1-like repeats; Region: SEL1; smart00671 481448003864 Sel1-like repeats; Region: SEL1; smart00671 481448003865 Sel1-like repeats; Region: SEL1; smart00671 481448003866 Sel1-like repeats; Region: SEL1; smart00671 481448003867 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 481448003868 Sel1-like repeats; Region: SEL1; smart00671 481448003869 Sel1-like repeats; Region: SEL1; smart00671 481448003870 Sel1-like repeats; Region: SEL1; smart00671 481448003871 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448003872 active site 481448003873 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 481448003874 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 481448003875 catalytic motif [active] 481448003876 Zn binding site [ion binding]; other site 481448003877 RibD C-terminal domain; Region: RibD_C; pfam01872 481448003878 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 481448003879 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 481448003880 transcription antitermination factor NusB; Region: nusB; TIGR01951 481448003881 putative RNA binding site [nucleotide binding]; other site 481448003882 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 481448003883 homopentamer interface [polypeptide binding]; other site 481448003884 active site 481448003885 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 481448003886 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 481448003887 CAAX protease self-immunity; Region: Abi; pfam02517 481448003888 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 481448003889 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448003890 active site 481448003891 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 481448003892 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 481448003893 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 481448003894 Low molecular weight phosphatase family; Region: LMWPc; cd00115 481448003895 active site 481448003896 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 481448003897 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 481448003898 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 481448003899 dimer interface [polypeptide binding]; other site 481448003900 active site 481448003901 glycine-pyridoxal phosphate binding site [chemical binding]; other site 481448003902 folate binding site [chemical binding]; other site 481448003903 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 481448003904 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 481448003905 Walker A motif; other site 481448003906 ATP binding site [chemical binding]; other site 481448003907 Walker B motif; other site 481448003908 arginine finger; other site 481448003909 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 481448003910 hypothetical protein; Validated; Region: PRK00153 481448003911 recombination protein RecR; Reviewed; Region: recR; PRK00076 481448003912 RecR protein; Region: RecR; pfam02132 481448003913 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 481448003914 putative active site [active] 481448003915 putative metal-binding site [ion binding]; other site 481448003916 tetramer interface [polypeptide binding]; other site 481448003917 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 481448003918 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 481448003919 putative catalytic residue [active] 481448003920 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 481448003921 Ligand Binding Site [chemical binding]; other site 481448003922 sulfite reductase subunit beta; Provisional; Region: PRK13504 481448003923 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 481448003924 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 481448003925 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 481448003926 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 481448003927 DNA-binding site [nucleotide binding]; DNA binding site 481448003928 UTRA domain; Region: UTRA; pfam07702 481448003929 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 481448003930 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 481448003931 phosphoribulokinase; Provisional; Region: PRK15453 481448003932 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 481448003933 AMP binding site [chemical binding]; other site 481448003934 metal binding site [ion binding]; metal-binding site 481448003935 active site 481448003936 Outer membrane efflux protein; Region: OEP; pfam02321 481448003937 Outer membrane efflux protein; Region: OEP; pfam02321 481448003938 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 481448003939 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 481448003940 prolyl-tRNA synthetase; Provisional; Region: PRK08661 481448003941 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_arch_euk; cd00778 481448003942 dimer interface [polypeptide binding]; other site 481448003943 motif 1; other site 481448003944 active site 481448003945 motif 2; other site 481448003946 motif 3; other site 481448003947 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 481448003948 anticodon binding site; other site 481448003949 zinc-binding site [ion binding]; other site 481448003950 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 481448003951 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 481448003952 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 481448003953 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 481448003954 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 481448003955 GatB domain; Region: GatB_Yqey; smart00845 481448003956 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 481448003957 nucleotide binding site [chemical binding]; other site 481448003958 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 481448003959 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 481448003960 putative active site [active] 481448003961 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 481448003962 Sel1-like repeats; Region: SEL1; smart00671 481448003963 Sel1-like repeats; Region: SEL1; smart00671 481448003964 Sel1-like repeats; Region: SEL1; smart00671 481448003965 Sel1-like repeats; Region: SEL1; smart00671 481448003966 Sel1-like repeats; Region: SEL1; smart00671 481448003967 Sel1-like repeats; Region: SEL1; smart00671 481448003968 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 481448003969 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 481448003970 nucleotide binding pocket [chemical binding]; other site 481448003971 K-X-D-G motif; other site 481448003972 catalytic site [active] 481448003973 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 481448003974 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 481448003975 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 481448003976 Dimer interface [polypeptide binding]; other site 481448003977 BRCT sequence motif; other site 481448003978 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 481448003979 glycerol kinase; Region: glycerol_kin; TIGR01311 481448003980 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 481448003981 nucleotide binding site [chemical binding]; other site 481448003982 Type III pantothenate kinase; Region: Pan_kinase; cl17198 481448003983 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 481448003984 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 481448003985 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 481448003986 protein binding site [polypeptide binding]; other site 481448003987 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 481448003988 protein binding site [polypeptide binding]; other site 481448003989 YacP-like NYN domain; Region: NYN_YacP; pfam05991 481448003990 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 481448003991 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 481448003992 active site 481448003993 HIGH motif; other site 481448003994 dimer interface [polypeptide binding]; other site 481448003995 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 481448003996 KMSKS motif; other site 481448003997 Chorismate mutase type II; Region: CM_2; smart00830 481448003998 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 481448003999 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 481448004000 active site 481448004001 catalytic residue [active] 481448004002 dimer interface [polypeptide binding]; other site 481448004003 rod shape-determining protein MreB; Provisional; Region: PRK13927 481448004004 MreB and similar proteins; Region: MreB_like; cd10225 481448004005 nucleotide binding site [chemical binding]; other site 481448004006 Mg binding site [ion binding]; other site 481448004007 putative protofilament interaction site [polypeptide binding]; other site 481448004008 RodZ interaction site [polypeptide binding]; other site 481448004009 rod shape-determining protein MreC; Provisional; Region: PRK13922 481448004010 Protein of unknown function (DUF904); Region: DUF904; cl11531 481448004011 rod shape-determining protein MreC; Region: MreC; pfam04085 481448004012 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 481448004013 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 481448004014 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 481448004015 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 481448004016 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 481448004017 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 481448004018 homodimer interface [polypeptide binding]; other site 481448004019 oligonucleotide binding site [chemical binding]; other site 481448004020 seryl-tRNA synthetase; Provisional; Region: PRK05431 481448004021 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 481448004022 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 481448004023 dimer interface [polypeptide binding]; other site 481448004024 active site 481448004025 motif 1; other site 481448004026 motif 2; other site 481448004027 motif 3; other site 481448004028 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 481448004029 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 481448004030 protein binding site [polypeptide binding]; other site 481448004031 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 481448004032 Catalytic dyad [active] 481448004033 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 481448004034 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 481448004035 rRNA binding site [nucleotide binding]; other site 481448004036 predicted 30S ribosome binding site; other site 481448004037 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 481448004038 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 481448004039 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 481448004040 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 481448004041 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 481448004042 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 481448004043 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 481448004044 heat shock protein HtpX; Provisional; Region: PRK05457 481448004045 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 481448004046 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 481448004047 tetramerization interface [polypeptide binding]; other site 481448004048 NAD(P) binding site [chemical binding]; other site 481448004049 catalytic residues [active] 481448004050 Protein of unknown function (DUF420); Region: DUF420; pfam04238 481448004051 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 481448004052 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 481448004053 Cu(I) binding site [ion binding]; other site 481448004054 ABC-2 type transporter; Region: ABC2_membrane; cl17235 481448004055 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 481448004056 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 481448004057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448004058 Walker A/P-loop; other site 481448004059 ATP binding site [chemical binding]; other site 481448004060 Q-loop/lid; other site 481448004061 ABC transporter signature motif; other site 481448004062 Walker B; other site 481448004063 D-loop; other site 481448004064 H-loop/switch region; other site 481448004065 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 481448004066 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 481448004067 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 481448004068 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 481448004069 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 481448004070 active site 481448004071 DNA binding site [nucleotide binding] 481448004072 Int/Topo IB signature motif; other site 481448004073 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 481448004074 Phosphoenolpyruvate carboxylase; Region: PEPcase; pfam00311 481448004075 2-isopropylmalate synthase; Validated; Region: PRK00915 481448004076 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 481448004077 active site 481448004078 catalytic residues [active] 481448004079 metal binding site [ion binding]; metal-binding site 481448004080 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 481448004081 ketol-acid reductoisomerase; Provisional; Region: PRK05479 481448004082 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 481448004083 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 481448004084 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 481448004085 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 481448004086 putative valine binding site [chemical binding]; other site 481448004087 dimer interface [polypeptide binding]; other site 481448004088 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 481448004089 Acylphosphatase; Region: Acylphosphatase; pfam00708 481448004090 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 481448004091 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 481448004092 AMP-binding enzyme; Region: AMP-binding; pfam00501 481448004093 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 481448004094 acyl-activating enzyme (AAE) consensus motif; other site 481448004095 AMP binding site [chemical binding]; other site 481448004096 active site 481448004097 CoA binding site [chemical binding]; other site 481448004098 Recombination protein O N terminal; Region: RecO_N; pfam11967 481448004099 Recombination protein O C terminal; Region: RecO_C; pfam02565 481448004100 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 481448004101 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 481448004102 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 481448004103 Zn2+ binding site [ion binding]; other site 481448004104 Mg2+ binding site [ion binding]; other site 481448004105 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 481448004106 PhoH-like protein; Region: PhoH; pfam02562 481448004107 glycogen synthase; Provisional; Region: glgA; PRK00654 481448004108 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 481448004109 ADP-binding pocket [chemical binding]; other site 481448004110 homodimer interface [polypeptide binding]; other site 481448004111 Predicted flavoprotein [General function prediction only]; Region: COG0431 481448004112 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 481448004113 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 481448004114 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 481448004115 hexamer interface [polypeptide binding]; other site 481448004116 ligand binding site [chemical binding]; other site 481448004117 putative active site [active] 481448004118 NAD(P) binding site [chemical binding]; other site 481448004119 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 481448004120 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 481448004121 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 481448004122 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 481448004123 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 481448004124 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 481448004125 NAD(P) binding site [chemical binding]; other site 481448004126 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 481448004127 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 481448004128 glutamine binding [chemical binding]; other site 481448004129 catalytic triad [active] 481448004130 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 481448004131 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 481448004132 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 481448004133 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 481448004134 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 481448004135 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 481448004136 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448004137 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 481448004138 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 481448004139 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 481448004140 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 481448004141 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448004142 Methyltransferase domain; Region: Methyltransf_23; pfam13489 481448004143 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 481448004144 S-adenosylmethionine binding site [chemical binding]; other site 481448004145 Methyltransferase domain; Region: Methyltransf_23; pfam13489 481448004146 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 481448004147 S-adenosylmethionine binding site [chemical binding]; other site 481448004148 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 481448004149 Mechanosensitive ion channel; Region: MS_channel; pfam00924 481448004150 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 481448004151 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 481448004152 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 481448004153 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 481448004154 E3 interaction surface; other site 481448004155 lipoyl attachment site [posttranslational modification]; other site 481448004156 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448004157 Methyltransferase domain; Region: Methyltransf_24; pfam13578 481448004158 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 481448004159 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 481448004160 [2Fe-2S] cluster binding site [ion binding]; other site 481448004161 RNA polymerase sigma factor; Provisional; Region: PRK11924 481448004162 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 481448004163 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 481448004164 DNA binding residues [nucleotide binding] 481448004165 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 481448004166 S-adenosylmethionine binding site [chemical binding]; other site 481448004167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 481448004168 amino acid transporter; Region: 2A0306; TIGR00909 481448004169 Spore germination protein; Region: Spore_permease; cl17796 481448004170 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 481448004171 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 481448004172 Coenzyme A binding pocket [chemical binding]; other site 481448004173 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 481448004174 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 481448004175 active site 481448004176 dimer interface [polypeptide binding]; other site 481448004177 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 481448004178 dimerization interface [polypeptide binding]; other site 481448004179 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 481448004180 ATP binding site [chemical binding]; other site 481448004181 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 481448004182 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 481448004183 HupF/HypC family; Region: HupF_HypC; pfam01455 481448004184 Acylphosphatase; Region: Acylphosphatase; pfam00708 481448004185 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 481448004186 HypF finger; Region: zf-HYPF; pfam07503 481448004187 HypF finger; Region: zf-HYPF; pfam07503 481448004188 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 481448004189 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 481448004190 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 481448004191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 481448004192 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 481448004193 NAD(P) binding site [chemical binding]; other site 481448004194 active site 481448004195 Type II restriction enzyme SfiI; Region: RestrictionSfiI; pfam11487 481448004196 DNA methylase; Region: N6_N4_Mtase; cl17433 481448004197 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 481448004198 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 481448004199 Substrate binding site; other site 481448004200 Cupin domain; Region: Cupin_2; cl17218 481448004201 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 481448004202 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 481448004203 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 481448004204 hydroxyglutarate oxidase; Provisional; Region: PRK11728 481448004205 intracellular protease, PfpI family; Region: PfpI; TIGR01382 481448004206 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 481448004207 conserved cys residue [active] 481448004208 ribosome recycling factor; Reviewed; Region: frr; PRK00083 481448004209 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 481448004210 hinge region; other site 481448004211 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 481448004212 putative nucleotide binding site [chemical binding]; other site 481448004213 uridine monophosphate binding site [chemical binding]; other site 481448004214 homohexameric interface [polypeptide binding]; other site 481448004215 excinuclease ABC subunit B; Provisional; Region: PRK05298 481448004216 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 481448004217 ATP binding site [chemical binding]; other site 481448004218 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 481448004219 nucleotide binding region [chemical binding]; other site 481448004220 ATP-binding site [chemical binding]; other site 481448004221 Ultra-violet resistance protein B; Region: UvrB; pfam12344 481448004222 UvrB/uvrC motif; Region: UVR; pfam02151 481448004223 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448004224 active site 481448004225 Protein of unknown function DUF72; Region: DUF72; pfam01904 481448004226 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 481448004227 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 481448004228 FAD binding domain; Region: FAD_binding_1; pfam00667 481448004229 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 481448004230 FAD binding pocket [chemical binding]; other site 481448004231 FAD binding motif [chemical binding]; other site 481448004232 catalytic residues [active] 481448004233 NAD binding pocket [chemical binding]; other site 481448004234 phosphate binding motif [ion binding]; other site 481448004235 beta-alpha-beta structure motif; other site 481448004236 putative carbohydrate kinase; Provisional; Region: PRK10565 481448004237 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 481448004238 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 481448004239 putative substrate binding site [chemical binding]; other site 481448004240 putative ATP binding site [chemical binding]; other site 481448004241 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 481448004242 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 481448004243 NAD(P) binding site [chemical binding]; other site 481448004244 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 481448004245 active site 481448004246 Putative molybdenum carrier; Region: MoCo_carrier; pfam12694 481448004247 Dihydroneopterin aldolase; Region: FolB; smart00905 481448004248 active site 481448004249 FAD binding domain; Region: FAD_binding_4; pfam01565 481448004250 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 481448004251 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 481448004252 catalytic triad [active] 481448004253 Lipase maturation factor; Region: LMF1; pfam06762 481448004254 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 481448004255 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 481448004256 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 481448004257 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 481448004258 putative dimer interface [polypeptide binding]; other site 481448004259 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 481448004260 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 481448004261 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 481448004262 oligomer interface [polypeptide binding]; other site 481448004263 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 481448004264 active site 481448004265 metal binding site [ion binding]; metal-binding site 481448004266 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 481448004267 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 481448004268 dimer interface [polypeptide binding]; other site 481448004269 active site 481448004270 metal binding site [ion binding]; metal-binding site 481448004271 glutathione binding site [chemical binding]; other site 481448004272 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 481448004273 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 481448004274 hexamer interface [polypeptide binding]; other site 481448004275 metal binding site [ion binding]; metal-binding site 481448004276 substrate binding site [chemical binding]; other site 481448004277 ALDH subfamily: ALDH families 1and 2, including 10-formyltetrahydrofolate dehydrogenase, NAD+-dependent retinal dehydrogenase 1 and related proteins; Region: ALDH_F1-2_Ald2-like; cd07091 481448004278 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 481448004279 NAD(P) binding site [chemical binding]; other site 481448004280 catalytic residues [active] 481448004281 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 481448004282 FIST N domain; Region: FIST; smart00897 481448004283 FIST C domain; Region: FIST_C; pfam10442 481448004284 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 481448004285 Walker A motif; other site 481448004286 ATP binding site [chemical binding]; other site 481448004287 Walker B motif; other site 481448004288 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 481448004289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 481448004290 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 481448004291 NAD(P) binding site [chemical binding]; other site 481448004292 active site 481448004293 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 481448004294 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 481448004295 intersubunit interface [polypeptide binding]; other site 481448004296 active site 481448004297 catalytic residue [active] 481448004298 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 481448004299 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 481448004300 putative NAD(P) binding site [chemical binding]; other site 481448004301 putative substrate binding site [chemical binding]; other site 481448004302 catalytic Zn binding site [ion binding]; other site 481448004303 structural Zn binding site [ion binding]; other site 481448004304 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 481448004305 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 481448004306 ligand binding site [chemical binding]; other site 481448004307 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 481448004308 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 481448004309 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 481448004310 protein binding site [polypeptide binding]; other site 481448004311 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 481448004312 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 481448004313 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 481448004314 DNA binding residues [nucleotide binding] 481448004315 tetratricopeptide repeat protein; Provisional; Region: PRK11788 481448004316 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 481448004317 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 481448004318 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 481448004319 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 481448004320 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 481448004321 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 481448004322 NusA N-terminal domain; Region: NusA_N; pfam08529 481448004323 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 481448004324 RNA binding site [nucleotide binding]; other site 481448004325 homodimer interface [polypeptide binding]; other site 481448004326 NusA-like KH domain; Region: KH_5; pfam13184 481448004327 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 481448004328 G-X-X-G motif; other site 481448004329 translation initiation factor IF-2; Region: IF-2; TIGR00487 481448004330 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 481448004331 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 481448004332 G1 box; other site 481448004333 putative GEF interaction site [polypeptide binding]; other site 481448004334 GTP/Mg2+ binding site [chemical binding]; other site 481448004335 Switch I region; other site 481448004336 G2 box; other site 481448004337 G3 box; other site 481448004338 Switch II region; other site 481448004339 G4 box; other site 481448004340 G5 box; other site 481448004341 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 481448004342 Translation-initiation factor 2; Region: IF-2; pfam11987 481448004343 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 481448004344 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 481448004345 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 481448004346 dimer interface [polypeptide binding]; other site 481448004347 conserved gate region; other site 481448004348 putative PBP binding loops; other site 481448004349 ABC-ATPase subunit interface; other site 481448004350 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 481448004351 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 481448004352 ABC-ATPase subunit interface; other site 481448004353 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 481448004354 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 481448004355 NAD binding site [chemical binding]; other site 481448004356 homodimer interface [polypeptide binding]; other site 481448004357 active site 481448004358 substrate binding site [chemical binding]; other site 481448004359 probable nitrogen fixation protein; Region: TIGR02935 481448004360 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 481448004361 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 481448004362 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 481448004363 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 481448004364 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 481448004365 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 481448004366 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 481448004367 MoFe protein beta/alpha subunit interactions; other site 481448004368 Beta subunit P cluster binding residues; other site 481448004369 MoFe protein beta subunit/Fe protein contacts; other site 481448004370 MoFe protein dimer/ dimer interactions; other site 481448004371 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 481448004372 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 481448004373 MoFe protein alpha/beta subunit interactions; other site 481448004374 Alpha subunit P cluster binding residues; other site 481448004375 FeMoco binding residues [chemical binding]; other site 481448004376 MoFe protein alpha subunit/Fe protein contacts; other site 481448004377 MoFe protein dimer/ dimer interactions; other site 481448004378 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 481448004379 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 481448004380 Nucleotide-binding sites [chemical binding]; other site 481448004381 Walker A motif; other site 481448004382 Switch I region of nucleotide binding site; other site 481448004383 Fe4S4 binding sites [ion binding]; other site 481448004384 Switch II region of nucleotide binding site; other site 481448004385 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 481448004386 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 481448004387 active site 481448004388 catalytic residues [active] 481448004389 metal binding site [ion binding]; metal-binding site 481448004390 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 481448004391 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 481448004392 Active Sites [active] 481448004393 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 481448004394 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 481448004395 Active Sites [active] 481448004396 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 481448004397 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 481448004398 G1 box; other site 481448004399 GTP/Mg2+ binding site [chemical binding]; other site 481448004400 G2 box; other site 481448004401 Switch I region; other site 481448004402 G3 box; other site 481448004403 Switch II region; other site 481448004404 G4 box; other site 481448004405 G5 box; other site 481448004406 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 481448004407 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 481448004408 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 481448004409 ligand-binding site [chemical binding]; other site 481448004410 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 481448004411 MoaE homodimer interface [polypeptide binding]; other site 481448004412 MoaD interaction [polypeptide binding]; other site 481448004413 active site residues [active] 481448004414 Ubiquitin-like proteins; Region: UBQ; cl00155 481448004415 charged pocket; other site 481448004416 hydrophobic patch; other site 481448004417 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 481448004418 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 481448004419 FeS/SAM binding site; other site 481448004420 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 481448004421 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 481448004422 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 481448004423 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 481448004424 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 481448004425 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 481448004426 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 481448004427 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 481448004428 Verruc_Plancto-restricted protein; Region: Plancto_Ver_chp; TIGR04138 481448004429 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 481448004430 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 481448004431 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 481448004432 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 481448004433 putative active site [active] 481448004434 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 481448004435 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 481448004436 Protein of unknown function (DUF1664); Region: DUF1664; pfam07889 481448004437 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 481448004438 active site 481448004439 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 481448004440 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 481448004441 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 481448004442 active site 481448004443 substrate binding site [chemical binding]; other site 481448004444 metal binding site [ion binding]; metal-binding site 481448004445 Uncharacterized conserved protein [Function unknown]; Region: COG1624 481448004446 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 481448004447 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 481448004448 dihydropteroate synthase; Region: DHPS; TIGR01496 481448004449 substrate binding pocket [chemical binding]; other site 481448004450 dimer interface [polypeptide binding]; other site 481448004451 inhibitor binding site; inhibition site 481448004452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 481448004453 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 481448004454 Probable transposase; Region: OrfB_IS605; pfam01385 481448004455 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 481448004456 hypothetical protein; Provisional; Region: PRK08609 481448004457 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 481448004458 active site 481448004459 primer binding site [nucleotide binding]; other site 481448004460 NTP binding site [chemical binding]; other site 481448004461 metal binding triad [ion binding]; metal-binding site 481448004462 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 481448004463 active site 481448004464 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 481448004465 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 481448004466 inhibitor-cofactor binding pocket; inhibition site 481448004467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448004468 catalytic residue [active] 481448004469 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 481448004470 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 481448004471 FOG: WD40 repeat [General function prediction only]; Region: COG2319 481448004472 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 481448004473 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 481448004474 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 481448004475 Walker A motif; other site 481448004476 ATP binding site [chemical binding]; other site 481448004477 Walker B motif; other site 481448004478 arginine finger; other site 481448004479 Peptidase family M41; Region: Peptidase_M41; pfam01434 481448004480 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 481448004481 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 481448004482 UbiA prenyltransferase family; Region: UbiA; pfam01040 481448004483 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 481448004484 Flavoprotein; Region: Flavoprotein; pfam02441 481448004485 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 481448004486 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 481448004487 active site 481448004488 phosphorylation site [posttranslational modification] 481448004489 intermolecular recognition site; other site 481448004490 dimerization interface [polypeptide binding]; other site 481448004491 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 481448004492 DNA binding residues [nucleotide binding] 481448004493 dimerization interface [polypeptide binding]; other site 481448004494 Methyltransferase domain; Region: Methyltransf_31; pfam13847 481448004495 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 481448004496 S-adenosylmethionine binding site [chemical binding]; other site 481448004497 dihydrodipicolinate reductase; Provisional; Region: PRK00048 481448004498 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 481448004499 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 481448004500 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 481448004501 dihydrodipicolinate synthase; Region: dapA; TIGR00674 481448004502 dimer interface [polypeptide binding]; other site 481448004503 active site 481448004504 catalytic residue [active] 481448004505 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 481448004506 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 481448004507 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 481448004508 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 481448004509 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 481448004510 putative active site [active] 481448004511 oxyanion strand; other site 481448004512 catalytic triad [active] 481448004513 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 481448004514 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 481448004515 catalytic residues [active] 481448004516 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448004517 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448004518 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448004519 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 481448004520 putative active site [active] 481448004521 putative metal binding site [ion binding]; other site 481448004522 DoxX; Region: DoxX; pfam07681 481448004523 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 481448004524 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 481448004525 ATP-grasp domain; Region: ATP-grasp_4; cl17255 481448004526 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 481448004527 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 481448004528 ATP-grasp domain; Region: ATP-grasp_4; cl17255 481448004529 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 481448004530 IMP binding site; other site 481448004531 dimer interface [polypeptide binding]; other site 481448004532 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 481448004533 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 481448004534 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 481448004535 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 481448004536 Protein export membrane protein; Region: SecD_SecF; pfam02355 481448004537 Preprotein translocase subunit; Region: YajC; pfam02699 481448004538 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 481448004539 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 481448004540 ADP-glucose phosphorylase; Region: PLN02643 481448004541 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 481448004542 nucleotide binding site/active site [active] 481448004543 HIT family signature motif; other site 481448004544 catalytic residue [active] 481448004545 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 481448004546 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 481448004547 putative active site [active] 481448004548 catalytic site [active] 481448004549 N-terminal catalytic domain of 4-alpha-glucanotransferase; glycoside hydrolase family 57 (GH57); Region: GH57N_TLGT_like; cd10793 481448004550 active site 481448004551 catalytic site [active] 481448004552 homodimer interface [polypeptide binding]; other site 481448004553 Lid 1; other site 481448004554 Domain of unknown function (DUF1925); Region: DUF1925; pfam09094 481448004555 Domain of unknown function (DUF1926); Region: DUF1926; pfam09095 481448004556 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 481448004557 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 481448004558 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 481448004559 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 481448004560 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 481448004561 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 481448004562 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 481448004563 Cytochrome c; Region: Cytochrom_C; pfam00034 481448004564 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 481448004565 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 481448004566 D-pathway; other site 481448004567 Putative water exit pathway; other site 481448004568 Binuclear center (active site) [active] 481448004569 K-pathway; other site 481448004570 Putative proton exit pathway; other site 481448004571 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 481448004572 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 481448004573 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 481448004574 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 481448004575 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 481448004576 molybdopterin cofactor binding site; other site 481448004577 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 481448004578 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 481448004579 4Fe-4S binding domain; Region: Fer4; cl02805 481448004580 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 481448004581 heme-binding residues [chemical binding]; other site 481448004582 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 481448004583 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 481448004584 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 481448004585 FeS/SAM binding site; other site 481448004586 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 481448004587 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 481448004588 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 481448004589 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 481448004590 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448004591 DNA binding residues [nucleotide binding] 481448004592 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448004593 RIP metalloprotease RseP; Region: TIGR00054 481448004594 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 481448004595 active site 481448004596 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 481448004597 protein binding site [polypeptide binding]; other site 481448004598 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 481448004599 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 481448004600 putative substrate binding region [chemical binding]; other site 481448004601 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 481448004602 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 481448004603 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 481448004604 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 481448004605 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 481448004606 23S rRNA binding site [nucleotide binding]; other site 481448004607 L21 binding site [polypeptide binding]; other site 481448004608 L13 binding site [polypeptide binding]; other site 481448004609 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 481448004610 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 481448004611 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 481448004612 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 481448004613 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 481448004614 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 481448004615 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 481448004616 active site 481448004617 dimer interface [polypeptide binding]; other site 481448004618 motif 1; other site 481448004619 motif 2; other site 481448004620 motif 3; other site 481448004621 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 481448004622 anticodon binding site; other site 481448004623 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 481448004624 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 481448004625 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 481448004626 active site 481448004627 catalytic residues [active] 481448004628 metal binding site [ion binding]; metal-binding site 481448004629 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 481448004630 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 481448004631 30S subunit binding site; other site 481448004632 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 481448004633 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 481448004634 active site 481448004635 Zn binding site [ion binding]; other site 481448004636 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 481448004637 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 481448004638 active site 481448004639 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 481448004640 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448004641 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 481448004642 putative active site [active] 481448004643 putative Zn binding site [ion binding]; other site 481448004644 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448004645 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 481448004646 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 481448004647 Prostaglandin dehydrogenases; Region: PGDH; cd05288 481448004648 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 481448004649 NAD(P) binding site [chemical binding]; other site 481448004650 substrate binding site [chemical binding]; other site 481448004651 dimer interface [polypeptide binding]; other site 481448004652 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 481448004653 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 481448004654 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 481448004655 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 481448004656 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 481448004657 active site 481448004658 homodimer interface [polypeptide binding]; other site 481448004659 catalytic site [active] 481448004660 acceptor binding site [chemical binding]; other site 481448004661 Methylamine dehydrogenase heavy chain (MADH); Region: Me-amine-dh_H; pfam06433 481448004662 Methylamine utilisation protein MauE; Region: MauE; pfam07291 481448004663 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 481448004664 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 481448004665 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 481448004666 Cytochrome c; Region: Cytochrom_C; pfam00034 481448004667 Glucokinase; Region: Glucokinase; pfam02685 481448004668 glucokinase, proteobacterial type; Region: glk; TIGR00749 481448004669 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 481448004670 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 481448004671 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 481448004672 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 481448004673 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 481448004674 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 481448004675 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 481448004676 FeS/SAM binding site; other site 481448004677 Transcriptional regulator [Transcription]; Region: LysR; COG0583 481448004678 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 481448004679 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 481448004680 dimerization interface [polypeptide binding]; other site 481448004681 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448004682 DNA binding residues [nucleotide binding] 481448004683 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 481448004684 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 481448004685 catalytic residues [active] 481448004686 catalytic nucleophile [active] 481448004687 Probable transposase; Region: OrfB_IS605; pfam01385 481448004688 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 481448004689 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448004690 AAA domain; Region: AAA_32; pfam13654 481448004691 Methyltransferase domain; Region: Methyltransf_24; pfam13578 481448004692 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 481448004693 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 481448004694 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 481448004695 thiS-thiF/thiG interaction site; other site 481448004696 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 481448004697 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 481448004698 NAD binding site [chemical binding]; other site 481448004699 ATP-grasp domain; Region: ATP-grasp_4; cl17255 481448004700 AIR carboxylase; Region: AIRC; pfam00731 481448004701 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 481448004702 Flavoprotein; Region: Flavoprotein; pfam02441 481448004703 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 481448004704 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 481448004705 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 481448004706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448004707 catalytic residue [active] 481448004708 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 481448004709 active site 481448004710 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 481448004711 active site 481448004712 ribulose/triose binding site [chemical binding]; other site 481448004713 phosphate binding site [ion binding]; other site 481448004714 substrate (anthranilate) binding pocket [chemical binding]; other site 481448004715 product (indole) binding pocket [chemical binding]; other site 481448004716 TPR repeat; Region: TPR_11; pfam13414 481448004717 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 481448004718 binding surface 481448004719 TPR motif; other site 481448004720 TPR repeat; Region: TPR_11; pfam13414 481448004721 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 481448004722 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 481448004723 putative substrate translocation pore; other site 481448004724 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 481448004725 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 481448004726 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 481448004727 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 481448004728 active site 481448004729 phosphorylation site [posttranslational modification] 481448004730 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 481448004731 ATP-NAD kinase; Region: NAD_kinase; pfam01513 481448004732 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 481448004733 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 481448004734 substrate binding site [chemical binding]; other site 481448004735 ATP binding site [chemical binding]; other site 481448004736 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 481448004737 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 481448004738 active site 481448004739 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 481448004740 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 481448004741 S-adenosylmethionine binding site [chemical binding]; other site 481448004742 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 481448004743 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 481448004744 active site 481448004745 Probable transposase; Region: OrfB_IS605; pfam01385 481448004746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 481448004747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 481448004748 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 481448004749 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 481448004750 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 481448004751 haemagglutination activity domain; Region: Haemagg_act; cl05436 481448004752 Methyltransferase domain; Region: Methyltransf_24; pfam13578 481448004753 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 481448004754 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 481448004755 active site 481448004756 Protein of unknown function (DUF707); Region: DUF707; pfam05212 481448004757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 481448004758 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 481448004759 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 481448004760 S-adenosylmethionine binding site [chemical binding]; other site 481448004761 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 481448004762 S-adenosylmethionine binding site [chemical binding]; other site 481448004763 haemagglutination activity domain; Region: Haemagg_act; cl05436 481448004764 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 481448004765 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 481448004766 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 481448004767 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 481448004768 TPR repeat; Region: TPR_11; pfam13414 481448004769 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 481448004770 binding surface 481448004771 TPR motif; other site 481448004772 TPR repeat; Region: TPR_11; pfam13414 481448004773 TPR repeat; Region: TPR_11; pfam13414 481448004774 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 481448004775 binding surface 481448004776 TPR motif; other site 481448004777 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 481448004778 binding surface 481448004779 TPR motif; other site 481448004780 Tetratricopeptide repeat; Region: TPR_12; pfam13424 481448004781 aspartate kinase; Reviewed; Region: PRK06635 481448004782 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 481448004783 putative nucleotide binding site [chemical binding]; other site 481448004784 putative catalytic residues [active] 481448004785 putative Mg ion binding site [ion binding]; other site 481448004786 putative aspartate binding site [chemical binding]; other site 481448004787 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 481448004788 putative allosteric regulatory site; other site 481448004789 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 481448004790 putative allosteric regulatory residue; other site 481448004791 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 481448004792 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 481448004793 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 481448004794 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 481448004795 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 481448004796 active site 481448004797 phosphorylation site [posttranslational modification] 481448004798 intermolecular recognition site; other site 481448004799 dimerization interface [polypeptide binding]; other site 481448004800 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 481448004801 Walker A motif; other site 481448004802 ATP binding site [chemical binding]; other site 481448004803 Walker B motif; other site 481448004804 arginine finger; other site 481448004805 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 481448004806 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 481448004807 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 481448004808 putative active site [active] 481448004809 heme pocket [chemical binding]; other site 481448004810 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 481448004811 dimer interface [polypeptide binding]; other site 481448004812 phosphorylation site [posttranslational modification] 481448004813 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 481448004814 ATP binding site [chemical binding]; other site 481448004815 Mg2+ binding site [ion binding]; other site 481448004816 G-X-G motif; other site 481448004817 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 481448004818 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 481448004819 active site 481448004820 metal binding site [ion binding]; metal-binding site 481448004821 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 481448004822 pantoate--beta-alanine ligase; Region: panC; TIGR00018 481448004823 active site 481448004824 nucleotide binding site [chemical binding]; other site 481448004825 HIGH motif; other site 481448004826 KMSKS motif; other site 481448004827 Integral membrane protein TerC family; Region: TerC; cl10468 481448004828 Bifunctional nuclease; Region: DNase-RNase; pfam02577 481448004829 arginine decarboxylase; Provisional; Region: PRK05354 481448004830 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 481448004831 dimer interface [polypeptide binding]; other site 481448004832 active site 481448004833 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 481448004834 catalytic residues [active] 481448004835 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 481448004836 Transcriptional regulator [Transcription]; Region: LysR; COG0583 481448004837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 481448004838 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 481448004839 dimerization interface [polypeptide binding]; other site 481448004840 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 481448004841 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 481448004842 catalytic residue [active] 481448004843 Rrf2 family protein; Region: rrf2_super; TIGR00738 481448004844 Transcriptional regulator; Region: Rrf2; pfam02082 481448004845 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 481448004846 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 481448004847 interface (dimer of trimers) [polypeptide binding]; other site 481448004848 Substrate-binding/catalytic site; other site 481448004849 Zn-binding sites [ion binding]; other site 481448004850 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional; Region: PRK13371 481448004851 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 481448004852 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 481448004853 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 481448004854 active site 481448004855 ADP/pyrophosphate binding site [chemical binding]; other site 481448004856 dimerization interface [polypeptide binding]; other site 481448004857 allosteric effector site; other site 481448004858 fructose-1,6-bisphosphate binding site; other site 481448004859 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 481448004860 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 481448004861 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 481448004862 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 481448004863 trimer interface [polypeptide binding]; other site 481448004864 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 481448004865 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 481448004866 RNase E interface [polypeptide binding]; other site 481448004867 trimer interface [polypeptide binding]; other site 481448004868 active site 481448004869 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 481448004870 putative nucleic acid binding region [nucleotide binding]; other site 481448004871 G-X-X-G motif; other site 481448004872 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 481448004873 RNA binding site [nucleotide binding]; other site 481448004874 domain interface; other site 481448004875 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 481448004876 16S/18S rRNA binding site [nucleotide binding]; other site 481448004877 S13e-L30e interaction site [polypeptide binding]; other site 481448004878 25S rRNA binding site [nucleotide binding]; other site 481448004879 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 481448004880 active site 481448004881 substrate binding site [chemical binding]; other site 481448004882 metal binding site [ion binding]; metal-binding site 481448004883 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u1; cd11493 481448004884 Na binding site [ion binding]; other site 481448004885 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 481448004886 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 481448004887 putative active site; other site 481448004888 catalytic residue [active] 481448004889 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 481448004890 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 481448004891 active site 481448004892 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 481448004893 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 481448004894 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 481448004895 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 481448004896 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 481448004897 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 481448004898 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 481448004899 DNA binding site [nucleotide binding] 481448004900 active site 481448004901 Met-10+ like-protein; Region: Met_10; pfam02475 481448004902 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 481448004903 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 481448004904 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 481448004905 Walker A/P-loop; other site 481448004906 ATP binding site [chemical binding]; other site 481448004907 Q-loop/lid; other site 481448004908 ABC transporter signature motif; other site 481448004909 Walker B; other site 481448004910 D-loop; other site 481448004911 H-loop/switch region; other site 481448004912 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 481448004913 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 481448004914 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 481448004915 Walker A/P-loop; other site 481448004916 ATP binding site [chemical binding]; other site 481448004917 Q-loop/lid; other site 481448004918 ABC transporter signature motif; other site 481448004919 Walker B; other site 481448004920 D-loop; other site 481448004921 H-loop/switch region; other site 481448004922 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 481448004923 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 481448004924 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 481448004925 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 481448004926 dimer interface [polypeptide binding]; other site 481448004927 conserved gate region; other site 481448004928 putative PBP binding loops; other site 481448004929 ABC-ATPase subunit interface; other site 481448004930 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 481448004931 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 481448004932 dimer interface [polypeptide binding]; other site 481448004933 conserved gate region; other site 481448004934 putative PBP binding loops; other site 481448004935 ABC-ATPase subunit interface; other site 481448004936 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 481448004937 Uncharacterized protein family UPF0546; Region: UPF0546; pfam10639 481448004938 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 481448004939 DHH family; Region: DHH; pfam01368 481448004940 DHHA1 domain; Region: DHHA1; pfam02272 481448004941 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 481448004942 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 481448004943 RNA binding site [nucleotide binding]; other site 481448004944 active site 481448004945 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 481448004946 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 481448004947 active site 481448004948 Riboflavin kinase; Region: Flavokinase; smart00904 481448004949 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 481448004950 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 481448004951 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 481448004952 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 481448004953 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 481448004954 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 481448004955 HlyD family secretion protein; Region: HlyD_3; pfam13437 481448004956 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 481448004957 Ligand Binding Site [chemical binding]; other site 481448004958 Peroxiredoxin family protein [General function prediction only]; Region: COG2210 481448004959 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 481448004960 CPxP motif; other site 481448004961 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 481448004962 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 481448004963 S-adenosylmethionine binding site [chemical binding]; other site 481448004964 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 481448004965 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 481448004966 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 481448004967 PhoU domain; Region: PhoU; pfam01895 481448004968 PhoU domain; Region: PhoU; pfam01895 481448004969 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 481448004970 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 481448004971 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 481448004972 lipoyl attachment site [posttranslational modification]; other site 481448004973 glycine dehydrogenase; Provisional; Region: PRK05367 481448004974 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 481448004975 tetramer interface [polypeptide binding]; other site 481448004976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448004977 catalytic residue [active] 481448004978 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 481448004979 tetramer interface [polypeptide binding]; other site 481448004980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448004981 catalytic residue [active] 481448004982 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 481448004983 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 481448004984 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 481448004985 active site 481448004986 NTP binding site [chemical binding]; other site 481448004987 metal binding triad [ion binding]; metal-binding site 481448004988 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 481448004989 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 481448004990 Zn2+ binding site [ion binding]; other site 481448004991 Mg2+ binding site [ion binding]; other site 481448004992 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 481448004993 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 481448004994 IHF dimer interface [polypeptide binding]; other site 481448004995 IHF - DNA interface [nucleotide binding]; other site 481448004996 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 481448004997 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 481448004998 ring oligomerisation interface [polypeptide binding]; other site 481448004999 ATP/Mg binding site [chemical binding]; other site 481448005000 stacking interactions; other site 481448005001 hinge regions; other site 481448005002 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 481448005003 oligomerisation interface [polypeptide binding]; other site 481448005004 mobile loop; other site 481448005005 roof hairpin; other site 481448005006 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 481448005007 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 481448005008 nucleotide binding site [chemical binding]; other site 481448005009 NEF interaction site [polypeptide binding]; other site 481448005010 SBD interface [polypeptide binding]; other site 481448005011 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 481448005012 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 481448005013 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 481448005014 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 481448005015 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 481448005016 nucleoside/Zn binding site; other site 481448005017 dimer interface [polypeptide binding]; other site 481448005018 catalytic motif [active] 481448005019 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 481448005020 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 481448005021 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 481448005022 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 481448005023 binding surface 481448005024 TPR repeat; Region: TPR_11; pfam13414 481448005025 TPR motif; other site 481448005026 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 481448005027 active site 481448005028 SAM binding site [chemical binding]; other site 481448005029 homodimer interface [polypeptide binding]; other site 481448005030 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 481448005031 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 481448005032 active site 481448005033 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 481448005034 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; cl17708 481448005035 domain interfaces; other site 481448005036 active site 481448005037 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 481448005038 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 481448005039 tRNA; other site 481448005040 putative tRNA binding site [nucleotide binding]; other site 481448005041 putative NADP binding site [chemical binding]; other site 481448005042 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 481448005043 Yqey-like protein; Region: YqeY; pfam09424 481448005044 Predicted permeases [General function prediction only]; Region: COG0795 481448005045 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 481448005046 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 481448005047 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 481448005048 active site 481448005049 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 481448005050 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 481448005051 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 481448005052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448005053 ABC transporter signature motif; other site 481448005054 Walker B; other site 481448005055 D-loop; other site 481448005056 H-loop/switch region; other site 481448005057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 481448005058 Walker A/P-loop; other site 481448005059 ATP binding site [chemical binding]; other site 481448005060 Q-loop/lid; other site 481448005061 ABC transporter signature motif; other site 481448005062 Walker B; other site 481448005063 D-loop; other site 481448005064 H-loop/switch region; other site 481448005065 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 481448005066 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 481448005067 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 481448005068 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 481448005069 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 481448005070 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 481448005071 dimer interface [polypeptide binding]; other site 481448005072 PYR/PP interface [polypeptide binding]; other site 481448005073 TPP binding site [chemical binding]; other site 481448005074 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 481448005075 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 481448005076 TPP-binding site [chemical binding]; other site 481448005077 dimer interface [polypeptide binding]; other site 481448005078 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 481448005079 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 481448005080 active site 481448005081 phosphorylation site [posttranslational modification] 481448005082 intermolecular recognition site; other site 481448005083 dimerization interface [polypeptide binding]; other site 481448005084 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 481448005085 DNA binding site [nucleotide binding] 481448005086 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 481448005087 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 481448005088 ATP binding site [chemical binding]; other site 481448005089 Mg2+ binding site [ion binding]; other site 481448005090 G-X-G motif; other site 481448005091 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 481448005092 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 481448005093 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448005094 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005095 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 481448005096 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 481448005097 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448005098 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005099 Deoxyhypusine synthase; Region: DS; cl00826 481448005100 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 481448005101 active site lid residues [active] 481448005102 substrate binding pocket [chemical binding]; other site 481448005103 catalytic residues [active] 481448005104 substrate-Mg2+ binding site; other site 481448005105 aspartate-rich region 1; other site 481448005106 aspartate-rich region 2; other site 481448005107 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 481448005108 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 481448005109 Probable transposase; Region: OrfB_IS605; pfam01385 481448005110 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 481448005111 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 481448005112 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448005113 DNA binding residues [nucleotide binding] 481448005114 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 481448005115 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 481448005116 catalytic residues [active] 481448005117 catalytic nucleophile [active] 481448005118 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 481448005119 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 481448005120 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 481448005121 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 481448005122 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 481448005123 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 481448005124 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 481448005125 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 481448005126 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 481448005127 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 481448005128 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 481448005129 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 481448005130 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 481448005131 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 481448005132 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 481448005133 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 481448005134 active site 481448005135 catalytic tetrad [active] 481448005136 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; pfam07578 481448005137 DJ-1 family protein; Region: not_thiJ; TIGR01383 481448005138 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 481448005139 conserved cys residue [active] 481448005140 Domain of unknown function (DUF1802); Region: DUF1802; pfam08819 481448005141 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 481448005142 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 481448005143 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 481448005144 Arabidopsis thaliana GDP-mannose-3',5'-epimerase (GME)-like, extended (e) SDRs; Region: GME-like_SDR_e; cd05273 481448005145 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 481448005146 NAD binding site [chemical binding]; other site 481448005147 homodimer interface [polypeptide binding]; other site 481448005148 substrate binding site [chemical binding]; other site 481448005149 active site 481448005150 putative glycosyl transferase; Provisional; Region: PRK10307 481448005151 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 481448005152 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448005153 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005154 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005155 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 481448005156 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005157 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448005158 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005159 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 481448005160 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 481448005161 BNR repeat-like domain; Region: BNR_2; pfam13088 481448005162 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; cl17698 481448005163 BNR repeat-like domain; Region: BNR_2; pfam13088 481448005164 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448005165 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005166 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 481448005167 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 481448005168 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 481448005169 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 481448005170 active site 481448005171 Substrate binding site; other site 481448005172 Mg++ binding site; other site 481448005173 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 481448005174 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 481448005175 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 481448005176 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 481448005177 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 481448005178 dimerization domain swap beta strand [polypeptide binding]; other site 481448005179 regulatory protein interface [polypeptide binding]; other site 481448005180 active site 481448005181 regulatory phosphorylation site [posttranslational modification]; other site 481448005182 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 481448005183 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 481448005184 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 481448005185 Hpr binding site; other site 481448005186 active site 481448005187 homohexamer subunit interaction site [polypeptide binding]; other site 481448005188 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 481448005189 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 481448005190 chaperone protein DnaJ; Provisional; Region: PRK10767 481448005191 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 481448005192 HSP70 interaction site [polypeptide binding]; other site 481448005193 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 481448005194 substrate binding site [polypeptide binding]; other site 481448005195 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 481448005196 Zn binding sites [ion binding]; other site 481448005197 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 481448005198 dimer interface [polypeptide binding]; other site 481448005199 GrpE; Region: GrpE; pfam01025 481448005200 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 481448005201 dimer interface [polypeptide binding]; other site 481448005202 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 481448005203 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 481448005204 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 481448005205 anti sigma factor interaction site; other site 481448005206 regulatory phosphorylation site [posttranslational modification]; other site 481448005207 putative hydrolase; Provisional; Region: PRK02113 481448005208 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 481448005209 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 481448005210 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 481448005211 active site 481448005212 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 481448005213 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 481448005214 Glucose inhibited division protein A; Region: GIDA; pfam01134 481448005215 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 481448005216 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 481448005217 putative tRNA-binding site [nucleotide binding]; other site 481448005218 B3/4 domain; Region: B3_4; pfam03483 481448005219 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 481448005220 motif 1; other site 481448005221 dimer interface [polypeptide binding]; other site 481448005222 active site 481448005223 motif 2; other site 481448005224 motif 3; other site 481448005225 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 481448005226 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 481448005227 S-adenosylmethionine binding site [chemical binding]; other site 481448005228 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 481448005229 active site 481448005230 homodimer interface [polypeptide binding]; other site 481448005231 metal binding site [ion binding]; metal-binding site 481448005232 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 481448005233 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 481448005234 active site 481448005235 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 481448005236 putative active site [active] 481448005237 putative catalytic site [active] 481448005238 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 481448005239 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 481448005240 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 481448005241 substrate binding site [chemical binding]; other site 481448005242 glutamase interaction surface [polypeptide binding]; other site 481448005243 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 481448005244 GTP cyclohydrolase I; Region: PLN02531 481448005245 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 481448005246 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 481448005247 dimer interface [polypeptide binding]; other site 481448005248 active site 481448005249 heme binding site [chemical binding]; other site 481448005250 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 481448005251 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 481448005252 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 481448005253 dimerization interface 3.5A [polypeptide binding]; other site 481448005254 active site 481448005255 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 481448005256 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 481448005257 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 481448005258 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 481448005259 substrate binding site [chemical binding]; other site 481448005260 active site 481448005261 catalytic residues [active] 481448005262 heterodimer interface [polypeptide binding]; other site 481448005263 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 481448005264 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 481448005265 active site 481448005266 dimer interface [polypeptide binding]; other site 481448005267 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 481448005268 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 481448005269 active site 481448005270 FMN binding site [chemical binding]; other site 481448005271 substrate binding site [chemical binding]; other site 481448005272 3Fe-4S cluster binding site [ion binding]; other site 481448005273 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 481448005274 domain interface; other site 481448005275 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 481448005276 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 481448005277 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 481448005278 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 481448005279 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 481448005280 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 481448005281 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 481448005282 Walker A motif; other site 481448005283 ATP binding site [chemical binding]; other site 481448005284 Walker B motif; other site 481448005285 arginine finger; other site 481448005286 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 481448005287 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 481448005288 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 481448005289 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 481448005290 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 481448005291 Catalytic site [active] 481448005292 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 481448005293 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 481448005294 active site 481448005295 DNA binding site [nucleotide binding] 481448005296 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 481448005297 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 481448005298 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 481448005299 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 481448005300 adenylosuccinate lyase; Provisional; Region: PRK07492 481448005301 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 481448005302 tetramer interface [polypeptide binding]; other site 481448005303 active site 481448005304 Adenylosuccinate lyase C-terminus; Region: ADSL_C; pfam10397 481448005305 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 481448005306 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 481448005307 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 481448005308 putative active site [active] 481448005309 catalytic triad [active] 481448005310 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 481448005311 S-adenosylmethionine binding site [chemical binding]; other site 481448005312 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 481448005313 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 481448005314 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 481448005315 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 481448005316 active site 481448005317 dimerization interface [polypeptide binding]; other site 481448005318 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 481448005319 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448005320 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005321 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005322 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 481448005323 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 481448005324 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 481448005325 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 481448005326 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 481448005327 XdhC Rossmann domain; Region: XdhC_C; pfam13478 481448005328 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 481448005329 nucleoside/Zn binding site; other site 481448005330 dimer interface [polypeptide binding]; other site 481448005331 catalytic motif [active] 481448005332 Predicted membrane protein [Function unknown]; Region: COG3748 481448005333 Protein of unknown function (DUF989); Region: DUF989; pfam06181 481448005334 Cytochrome c; Region: Cytochrom_C; pfam00034 481448005335 allantoate amidohydrolase; Reviewed; Region: PRK09290 481448005336 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 481448005337 active site 481448005338 metal binding site [ion binding]; metal-binding site 481448005339 dimer interface [polypeptide binding]; other site 481448005340 allantoinase; Provisional; Region: PRK06189 481448005341 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 481448005342 active site 481448005343 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 481448005344 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448005345 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 481448005346 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 481448005347 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 481448005348 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448005349 Major Facilitator Superfamily; Region: MFS_1; pfam07690 481448005350 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 481448005351 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 481448005352 putative substrate translocation pore; other site 481448005353 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 481448005354 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 481448005355 [2Fe-2S] cluster binding site [ion binding]; other site 481448005356 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 481448005357 hydrophobic ligand binding site; other site 481448005358 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 481448005359 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 481448005360 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 481448005361 active site 481448005362 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 481448005363 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 481448005364 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005365 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 481448005366 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 481448005367 active site 481448005368 homotetramer interface [polypeptide binding]; other site 481448005369 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 481448005370 allantoate amidohydrolase; Reviewed; Region: PRK09290 481448005371 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 481448005372 active site 481448005373 metal binding site [ion binding]; metal-binding site 481448005374 dimer interface [polypeptide binding]; other site 481448005375 hypothetical protein; Provisional; Region: PRK11171 481448005376 Cupin domain; Region: Cupin_2; cl17218 481448005377 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 481448005378 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 481448005379 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 481448005380 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 481448005381 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 481448005382 nudix motif; other site 481448005383 DNA polymerase Ligase (LigD); Region: LigD_N; pfam13298 481448005384 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448005385 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 481448005386 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 481448005387 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 481448005388 glycogen synthase; Provisional; Region: glgA; PRK00654 481448005389 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 481448005390 ADP-binding pocket [chemical binding]; other site 481448005391 homodimer interface [polypeptide binding]; other site 481448005392 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 481448005393 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 481448005394 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 481448005395 ornithine carbamoyltransferase; Provisional; Region: PRK00779 481448005396 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 481448005397 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 481448005398 acetylornithine aminotransferase; Provisional; Region: PRK02627 481448005399 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 481448005400 inhibitor-cofactor binding pocket; inhibition site 481448005401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 481448005402 catalytic residue [active] 481448005403 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 481448005404 feedback inhibition sensing region; other site 481448005405 homohexameric interface [polypeptide binding]; other site 481448005406 nucleotide binding site [chemical binding]; other site 481448005407 N-acetyl-L-glutamate binding site [chemical binding]; other site 481448005408 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 481448005409 heterotetramer interface [polypeptide binding]; other site 481448005410 active site pocket [active] 481448005411 cleavage site 481448005412 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 481448005413 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 481448005414 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 481448005415 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 481448005416 23S rRNA interface [nucleotide binding]; other site 481448005417 L3 interface [polypeptide binding]; other site 481448005418 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 481448005419 acetolactate synthase; Region: PLN02470 481448005420 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 481448005421 PYR/PP interface [polypeptide binding]; other site 481448005422 dimer interface [polypeptide binding]; other site 481448005423 TPP binding site [chemical binding]; other site 481448005424 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cd00368 481448005425 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 481448005426 TPP-binding site [chemical binding]; other site 481448005427 dimer interface [polypeptide binding]; other site 481448005428 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_cladeD; cd03379 481448005429 active site clefts [active] 481448005430 zinc binding site [ion binding]; other site 481448005431 dimer interface [polypeptide binding]; other site 481448005432 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 481448005433 substrate binding pocket [chemical binding]; other site 481448005434 dimer interface [polypeptide binding]; other site 481448005435 inhibitor binding site; inhibition site 481448005436 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 481448005437 putative active site pocket [active] 481448005438 4-fold oligomerization interface [polypeptide binding]; other site 481448005439 metal binding residues [ion binding]; metal-binding site 481448005440 3-fold/trimer interface [polypeptide binding]; other site 481448005441 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 481448005442 DNA binding residues [nucleotide binding] 481448005443 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 481448005444 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 481448005445 catalytic residues [active] 481448005446 catalytic nucleophile [active] 481448005447 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 481448005448 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 481448005449 Probable transposase; Region: OrfB_IS605; pfam01385 481448005450 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 481448005451 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 481448005452 diiron binding motif [ion binding]; other site 481448005453 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 481448005454 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 481448005455 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 481448005456 FAD binding pocket [chemical binding]; other site 481448005457 FAD binding motif [chemical binding]; other site 481448005458 phosphate binding motif [ion binding]; other site 481448005459 beta-alpha-beta structure motif; other site 481448005460 NAD binding pocket [chemical binding]; other site 481448005461 Iron coordination center [ion binding]; other site 481448005462 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 481448005463 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 481448005464 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 481448005465 phosphate binding site [ion binding]; other site 481448005466 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 481448005467 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 481448005468 dimer interface [polypeptide binding]; other site 481448005469 PYR/PP interface [polypeptide binding]; other site 481448005470 TPP binding site [chemical binding]; other site 481448005471 substrate binding site [chemical binding]; other site 481448005472 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 481448005473 Domain of unknown function; Region: EKR; smart00890 481448005474 4Fe-4S binding domain; Region: Fer4_6; pfam12837 481448005475 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 481448005476 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 481448005477 TPP-binding site [chemical binding]; other site 481448005478 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 481448005479 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 481448005480 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 481448005481 ligand binding site [chemical binding]; other site 481448005482 flexible hinge region; other site 481448005483 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 481448005484 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 481448005485 FAD binding pocket [chemical binding]; other site 481448005486 FAD binding motif [chemical binding]; other site 481448005487 phosphate binding motif [ion binding]; other site 481448005488 beta-alpha-beta structure motif; other site 481448005489 NAD binding pocket [chemical binding]; other site 481448005490 Iron coordination center [ion binding]; other site 481448005491 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 481448005492 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 481448005493 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 481448005494 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 481448005495 substrate binding site; other site 481448005496 tetramer interface; other site 481448005497 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 481448005498 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 481448005499 NAD binding site [chemical binding]; other site 481448005500 substrate binding site [chemical binding]; other site 481448005501 homodimer interface [polypeptide binding]; other site 481448005502 active site 481448005503 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 481448005504 Lumazine binding domain; Region: Lum_binding; pfam00677 481448005505 Lumazine binding domain; Region: Lum_binding; pfam00677 481448005506 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 481448005507 classical (c) SDRs; Region: SDR_c; cd05233 481448005508 NAD(P) binding site [chemical binding]; other site 481448005509 active site 481448005510 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 481448005511 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 481448005512 Competence protein; Region: Competence; pfam03772 481448005513 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 481448005514 active site residue [active] 481448005515 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 481448005516 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 481448005517 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 481448005518 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 481448005519 replicative DNA helicase; Region: DnaB; TIGR00665 481448005520 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 481448005521 Walker A motif; other site 481448005522 ATP binding site [chemical binding]; other site 481448005523 Walker B motif; other site 481448005524 DNA binding loops [nucleotide binding] 481448005525 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 481448005526 ThiS interaction site; other site 481448005527 putative active site [active] 481448005528 tetramer interface [polypeptide binding]; other site 481448005529 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 481448005530 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 481448005531 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 481448005532 active site 481448005533 Zn binding site [ion binding]; other site 481448005534 homoserine kinase; Provisional; Region: PRK01212 481448005535 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 481448005536 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 481448005537 Rhomboid family; Region: Rhomboid; pfam01694 481448005538 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 481448005539 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 481448005540 dimerization interface [polypeptide binding]; other site 481448005541 active site 481448005542 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 481448005543 G1 box; other site 481448005544 GTP/Mg2+ binding site [chemical binding]; other site 481448005545 G2 box; other site 481448005546 Switch I region; other site 481448005547 G3 box; other site 481448005548 Switch II region; other site 481448005549 G4 box; other site 481448005550 G5 box; other site 481448005551 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 481448005552 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 481448005553 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 481448005554 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 481448005555 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 481448005556 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 481448005557 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 481448005558 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 481448005559 beta subunit interaction interface [polypeptide binding]; other site 481448005560 Walker A motif; other site 481448005561 ATP binding site [chemical binding]; other site 481448005562 Walker B motif; other site 481448005563 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 481448005564 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 481448005565 core domain interface [polypeptide binding]; other site 481448005566 delta subunit interface [polypeptide binding]; other site 481448005567 epsilon subunit interface [polypeptide binding]; other site 481448005568 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 481448005569 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 481448005570 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 481448005571 alpha subunit interaction interface [polypeptide binding]; other site 481448005572 Walker A motif; other site 481448005573 ATP binding site [chemical binding]; other site 481448005574 Walker B motif; other site 481448005575 inhibitor binding site; inhibition site 481448005576 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 481448005577 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 481448005578 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 481448005579 gamma subunit interface [polypeptide binding]; other site 481448005580 epsilon subunit interface [polypeptide binding]; other site 481448005581 LBP interface [polypeptide binding]; other site 481448005582 Protein of unknown function (DUF971); Region: DUF971; pfam06155 481448005583 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 481448005584 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 481448005585 Ligand Binding Site [chemical binding]; other site 481448005586 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 481448005587 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 481448005588 RNA binding surface [nucleotide binding]; other site 481448005589 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 481448005590 active site 481448005591 argininosuccinate lyase; Provisional; Region: PRK00855 481448005592 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 481448005593 active sites [active] 481448005594 tetramer interface [polypeptide binding]; other site 481448005595 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 481448005596 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 481448005597 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 481448005598 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 481448005599 dimerization interface [polypeptide binding]; other site 481448005600 active site 481448005601 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 481448005602 Cytochrome c; Region: Cytochrom_C; pfam00034 481448005603 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 481448005604 Protein of unknown function (DUF1318); Region: DUF1318; cl01547 481448005605 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 481448005606 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 481448005607 nudix motif; other site 481448005608 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 481448005609 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 481448005610 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 481448005611 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 481448005612 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 481448005613 FtsX-like permease family; Region: FtsX; pfam02687 481448005614 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 481448005615 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 481448005616 FtsX-like permease family; Region: FtsX; pfam02687 481448005617 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 481448005618 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 481448005619 Walker A/P-loop; other site 481448005620 ATP binding site [chemical binding]; other site 481448005621 Q-loop/lid; other site 481448005622 ABC transporter signature motif; other site 481448005623 Walker B; other site 481448005624 D-loop; other site 481448005625 H-loop/switch region; other site 481448005626 CHASE2 domain; Region: CHASE2; cl01732 481448005627 chaperone protein DnaJ; Provisional; Region: PRK14278 481448005628 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 481448005629 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 481448005630 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 481448005631 TonB C terminal; Region: TonB_2; pfam13103 481448005632 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 481448005633 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 481448005634 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 481448005635 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 481448005636 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 481448005637 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 481448005638 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 481448005639 ligand binding site [chemical binding]; other site 481448005640 recombination factor protein RarA; Reviewed; Region: PRK13342 481448005641 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 481448005642 Walker A motif; other site 481448005643 ATP binding site [chemical binding]; other site 481448005644 Walker B motif; other site 481448005645 arginine finger; other site 481448005646 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 481448005647 von Willebrand factor type A domain; Region: VWA_2; pfam13519 481448005648 metal ion-dependent adhesion site (MIDAS); other site 481448005649 Oxygen tolerance; Region: BatD; pfam13584 481448005650 Tetratricopeptide repeat; Region: TPR_16; pfam13432 481448005651 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 481448005652 TPR motif; other site 481448005653 binding surface 481448005654 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 481448005655 [2Fe-2S] cluster binding site [ion binding]; other site 481448005656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 481448005657 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 481448005658 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 481448005659 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 481448005660 Walker A/P-loop; other site 481448005661 ATP binding site [chemical binding]; other site 481448005662 Q-loop/lid; other site 481448005663 ABC transporter signature motif; other site 481448005664 Walker B; other site 481448005665 D-loop; other site 481448005666 H-loop/switch region; other site 481448005667 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 481448005668 FeS assembly protein SufB; Region: sufB; TIGR01980 481448005669 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 481448005670 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 481448005671 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 481448005672 Domain of unknown function DUF59; Region: DUF59; cl00941 481448005673 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cl02713 481448005674 active site 481448005675 metal binding site [ion binding]; metal-binding site 481448005676 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 481448005677 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 481448005678 putative NAD(P) binding site [chemical binding]; other site 481448005679 active site 481448005680 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 481448005681 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 481448005682 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 481448005683 catalytic residue [active] 481448005684 serine O-acetyltransferase; Region: cysE; TIGR01172 481448005685 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 481448005686 trimer interface [polypeptide binding]; other site 481448005687 active site 481448005688 substrate binding site [chemical binding]; other site 481448005689 CoA binding site [chemical binding]; other site 481448005690 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 481448005691 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 481448005692 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 481448005693 shikimate binding site; other site 481448005694 NAD(P) binding site [chemical binding]; other site