2PDA,1B0P,1YD7


Conserved Protein Domain Family
TPP_PYR_PFOR_IOR-alpha_like

?
cd07034: TPP_PYR_PFOR_IOR-alpha_like 
Click on image for an interactive view with Cn3D
Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins.
Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain, of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit (IOR-alpha), and related proteins, subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. A polar interaction between the conserved glutamate of the PYR domain and the N1' of the TPP aminopyrimidine ring is shared by most TPP-dependent enzymes, and participates in the activation of TPP. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites. For many of these enzymes the active sites lie between PP and PYR domains on different subunits. However, for the homodimeric enzyme Desulfovibrio africanus pyruvate:ferredoxin oxidoreductase (PFOR), each active site lies at the interface of the PYR and PP domains from the same subunit. This subfamily includes proteins characterized as pyruvate NADP+ oxidoreductase (PNO). PFOR and PNO catalyze the oxidative decarboxylation of pyruvate to form acetyl-CoA, a crucial step in many metabolic pathways. The facultative anaerobic mitochondrion of the photosynthetic protist Euglena gracilis oxidizes pyruvate with PNO. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as indolepyruvate or phenylpyruvate.
Statistics
?
PSSM-Id: 132917
View PSSM: cd07034
Aligned: 229 rows
Threshold Bit Score: 69.8378
Threshold Setting Gi: 71017677
Created: 2-Dec-2008
Updated: 2-Oct-2020
Structure
?
Program:
Drawing:
Aligned Rows:
 
Conserved site includes 2 residues -Click on image for an interactive view with Cn3D
Feature 1:TPP binding site [chemical binding site]
Evidence:
  • Comment:based on Desulfovibrio africanus PFOR
  • Structure:2PDA_A/B; Desulfovibrio africanus PFOR monomer binds TPP and divalent metal ion; contacts at 3.5A
    View structure with Cn3D
  • Comment:D. africanus PFOR is a homodimer, each monomer binds one TPP.

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
Feature 1                             #                                                #          
2PDA_A          9 GNTATAHVAYAms-eVAAIYPi------------TPSSTMGEeaddwaaqg-rknifgqtLTIREMQ-SEAGAAGAVHGA 73   Desulfovibrio...
CAP95185        7 AAEAVARIAYLtsdtVLSVQPs------------LQNDSLFSkslkalksnktsnlsskvTEVQAVR-YNEDPLLSAFTP 73   Penicillium c...
AAL14263       10 PQEAVARIAYLasdvVVSVQPslaaesdfsatlkSLASSRTQslvak--------aadavTEIIPVR-HNNDPLLSVFTP 80   Neurospora cr...
AAD55754        3 GNTAAAHIAYYlc-dNSLIFPi------------SPSSPMAElvdewaskg-rlnafdqvHRVTELN-HEGGAAGALHGA 67   Spironucleus ...
XP_001313671   18 GNAAAAHVAYNms-eASFLYPi------------TPSTPMGDqydkwsca--gkkniwdrVPIVRVLqSEAGAAGALHGA 82   Trichomonas v...
AAA85495       13 GNTAATSVAYQlt-eTSFIYPi------------TPATTMGElvdawiaqg-rkniwgnkVNMAMMQ-SEGGAAAAVHGA 77   Trichomonas v...
XP_001708704   15 GATATSMMVYRli-dFTAIFPi------------TPSSVMAEmieqyaaqg-kknifgnvVTVRQAW-SELGAIGTCHGA 79   Giardia lambl...
ACD10931       43 GNEAAAHAIYQvt-dAAMLFPi------------TPSSGMGEhcdawankg-lknvfgqkVVITEME-SEAGAAGALHGT 107  Blastocystis ...
XP_001307251   19 GNAAAAYVGYAft-eTAFGYPi------------TPSTTAFElveqwankdhrknvfgqvPTCIQLE-HEGGVAGSLHGG 84   Trichomonas v...
YP_286040      10 GNEAVANVAYRvs-eVIAIYPi------------TPSSGMGElsdewaaqg-ktnvwgcvPRVVELQ-SEGGAAGTVHGA 74   Dechloromonas...
Feature 1                                                                                         
2PDA_A         74 LAAGAl-TTTFTASQGLLLMIPNMYKISGElLPGVFHVTARAIAahalsifgdhqDIYAARQTg--FAMLASSsvQEAHD 150  Desulfovibrio...
CAP95185       74 LQNGEiiSVVTSSSVLITAVPHLYRLANSP-VVIHVALEPSPFPdy--------sVISSIRQSgftFLHSETV--QEAQD 142  Penicillium c...
AAL14263       81 IRSGRl-VSVTTTSEVLLPSIAHLYKLAQLpVVLHVALGPKSLPdy--------tAITSIRNSgwtFLQSNSL--QEAQD 149  Neurospora cr...
AAD55754       68 LLNGSl-SSTYTASQGLLLMIPNLYKMAAEhLPGVLHVAARTIAthslsihgdhsDIMAIKQTg--ISILVSPdvQEAMD 144  Spironucleus ...
XP_001313671   83 ASVGTf-TCTFTASQGLLLMIPNMLKTAGElWPTVFHVAARAVStqalsiqgdhaDVMCVKNTg--FAMLCSStiQEVMD 159  Trichomonas v...
AAA85495       78 TAVGAl-CATFTASQGALLMIPDMYKIVGEmCPAVFHIAARCIAtsalsiyndhgDIYACRATg--MPILFSNgvQEAHD 154  Trichomonas v...
XP_001708704   80 ATAGAl-TATFSSSQGVLLMISNLYHMAGErIPFVLHVATRTVGmaatslatdhtDVYAIEGTn--MCALSSCnvQECYD 156  Giardia lambl...
ACD10931      108 LTGGLl-SATFSSSQGLMLMVPSMHKISGElLPGVIHVSSRSVSkmttclycdygDVFQTRTTg--FAYLSSHsvQEAHD 184  Blastocystis ...
XP_001307251   85 SVAGAv-ASTFTSSQGLLLMLPNIIKMKHAqVPTVIHVASRSLIssigtiecdhsDVMTVRASg--ANMLSSAsnQDCHD 161  Trichomonas v...
YP_286040      75 LQAGSl-ATTFTASQGLLLMIPNMYKIAGElTPAVFHVAARTIAthalsifgdhsDVMATRGTg--FALLASNsvQEAQD 151  Dechloromonas...
Feature 1                               
2PDA_A        151 MALVAHLAAIEsnvPFMHFFDG 172  Desulfovibrio africanus
CAP95185      143 IAITAHALAHKsgkGVIHFFDP 164  Penicillium chrysogenum Wisconsin 54-1255
AAL14263      150 LALTAHALAVQsgkGVIHFFDP 171  Neurospora crassa
AAD55754      145 FALVAHIAAINadtPFIHAFDG 166  Spironucleus barkhanus
XP_001313671  160 LAAVSHMSTVDseiPFVHFFEG 181  Trichomonas vaginalis G3
AAA85495      155 LAAVAHLTSIHtglPFIHTFDG 176  Trichomonas vaginalis
XP_001708704  157 MSLVAHTTATNvqaAFCHFFEG 178  Giardia lamblia ATCC 50803
ACD10931      185 LALVAHLSAIDssiPFVHFFDG 206  Blastocystis sp. NandII
XP_001307251  162 LAAVAHIAAMKcqiPFLHFWDG 183  Trichomonas vaginalis G3
YP_286040     152 MAAIASAATLAgriPVLHFFDG 173  Dechloromonas aromatica RCB

| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap