Conserved Protein Domain Family
GDPD_YPL206cp_fungi

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cd08570: GDPD_YPL206cp_fungi 
Glycerophosphodiester phosphodiesterase domain of Saccharomyces cerevisiae YPL206cp and similar proteins
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Saccharomyces cerevisiae YPL206cp and uncharacterized hypothetical homologs existing in fungi. The product of S. cerevisiae ORF YPL206c (PGC1), YPL206cp (Pgc1p), displays homology to bacterial and mammalian glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. S. cerevisiae YPL206cp is an integral membrane protein with a single GDPD domain following by a short hydrophobic C-terminal tail that may function as a membrane anchor. This protein plays an essential role in the regulation of the cardiolipin (CL) biosynthetic pathway in yeast by removing the excess phosphatidylglycerol (PG) content of membranes via a phospholipase C-type degradation mechanism. YPL206cp has been characterized as a PG-specific phospholipase C that selectively catalyzes the cleavage of PG, not glycerophosphoinositol (GPI) or glycerophosphocholine (GPC), to diacylglycerol (DAG) and glycerophosphate. Members in this family are distantly related to S. cerevisiae YPL110cp, which selectively hydrolyzes glycerophosphocholine (GPC), not glycerophosphoinositol (GPI), to generate choline and glycerolphosphate, and has been characterized as a cytoplasmic GPC-specific phosphodiesterase.
Statistics
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PSSM-Id: 176512
View PSSM: cd08570
Aligned: 26 rows
Threshold Bit Score: 284.113
Threshold Setting Gi: 50287009
Created: 27-Oct-2009
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
Feature 1:catalytic site [active site]
Evidence:
  • Comment:The catalytic mechanism of glycerophosphodiester phosphodiesterases is based on the metal ion-dependent general acid-base reaction.
  • Comment:Based on structure evidence and site-directed mutagenesis of Thermoanaerobacter tengcongensis glycerophosphodiester phosphodiesterase, the catalytic site consists of two conserved histidine residues which serve as general acid and general base in catalyzing the hydrolysis of the 3'-5' phosphodiester bond.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1           #                                                 #                          
Q08959         4 IVGHRAFKAr--------YPENTLLAFEKAYAaGADVIETDLQMTSDGMVVVNHDSDTGRMWdkn-------lvIGESTW 68  baker's yeast
XP_505153     16 NTGHRGYRGk--------YAENSIHGFNEAVKdGAKAIEMDIQVSKDDVVVVSHDENTERCFnka------ydiTHTDFN 81  Yarrowia lipoly...
O14169        34 VIAHRGKCLtyvyrykakYPENTILAFQQAVKaGADCVETDVRLTKDEVVCILHDRNLNRVFgvd------vdvRDLDYE 107 fission yeast
XP_002492524  22 VGAHRGYRKl--------FPENTILSFDQAVNhGADMIELDLHLSSDQVLVVIHDQSTKAVFgtd------ynvCKTSYK 87  Pichia pastoris...
XP_445934      3 VISHRGYKAk--------FPENTLLGFENAYKaGADAIETDVQVTKDGVMVINHDASTGRLYnkd-------ltIVDSTL 67  Candida glabrat...
XP_002616561   9 VIGHRGFKAk--------YTENTIHGFEKCFEtGATMFETDVWTTKDDVLVISHDVNTNRIFcdengn-etnynIPESYY 79  Clavispora lusi...
NP_985454      4 IIGHRAYRGk--------YPENTLLAYDKAYEaGVDMIETDIQMSDDGVVVINHDMDTGRMYdrs-------msIADTEW 68  Ashbya gossypii...
CAH02034       4 VIGHRGFKAk--------YPENTLLCYEKAHEaGSEVIETDLQLTKDGKIVMNHDINTERVWdqn-------vvIGETNL 68  Kluyveromyces l...
CAG85923       7 ICGHRGFKGk--------YTENTLYSFDKCYEtGATLIETDLWITKDGVLVISHDNNTKRVFcgpnge-vadfdILDSTY 77  Debaryomyces ha...
EEQ46761      26 IVGHRGFKSk--------YPENTFLGFDKCFEaGGTVIETDLWLTKDNEIVISHDQYTKRVFvdsdgnptnyniTETPYD 97  Candida albican...
Feature 1                                                                                        
Q08959        69 EEVKRLRCKEDGslaMMTLKEILTWAvch---------pgAKLMLDIKFTNekiiMIKTFVIMLEVKNDLKf-WQERITW 138 baker's yeast
XP_505153     82 GVLDQLTMKEAPhekMPTFVDVAKLFttke-------ydgIVLMVDIKRTNhtsvVEKVVRDLKTINPDLDf-WAARVTL 153 Yarrowia lipoly...
O14169       108 LDNGHFRTIQEPhepLPTYEQFLHELtkh---------pgVNLLVDIKPVNdlliIPRMVDAMLRVNSDLDf-WKDKVSF 177 fission yeast
XP_002492524  88 DVLSKLRTIRHPpqpMPTFSDVLEWLsdy---------pdVKLMLDIKRDNpakdVIRLILEELTKKNTDVnfWRKRIIF 158 Pichia pastoris...
XP_445934     68 EELKKLRTINGDq-qILTLEELLHWLleh---------rdTKLLLDVKPLLpkiaMVKIYTMMLRVSEDVSf-WHEHVMW 136 Candida glabrat...
XP_002616561  80 DEIKDLRTIESGe-rMLTFKGLLRWFleyvqshggdsiseHRIMLDIKNANppriLQLIVAAIIDVHNDLAw-WFSRIQF 157 Clavispora lusi...
NP_985454     69 RKLQKLRLASHPdigMLSLRDALLWLmkh---------dnVKLLLDVKATNkrliLVRAVDEMLSLVDDLDy-WRSRILF 138 Ashbya gossypii...
CAH02034      69 DELLLLKSKINPeirITTFKDALQWLkeh---------ptMKFMLDIKPTNdkvlLIKAILEMRAVVDDLDf-WRQRLMF 138 Kluyveromyces l...
CAG85923      78 DEIKDLQTIETGe-rLLTFNDVLDWFvhyikt--hdnsngHKLMLDIKKLNpakiVKYLIKDLLKVNDDIGw-WLHRVIL 153 Debaryomyces ha...
EEQ46761      98 PILKHLKTIEGGy-pLFTFKELLQWFkkyidt---tqsndHKLQLDIKRFNptkiTKFIVQDLLTVHDDISw-WYHRIQF 172 Candida albican...
Feature 1                                                                                        
Q08959       139 GLWLldWYDFGIet--------------gvLKDFKVIVISLSld-iASQFVKRsltlnd------phyklFGISVHFVSS 197 baker's yeast
XP_505153    154 GIWKaeFLEPCKl----------------hAPQFDLTHIGISqg-yVSEFLKSdq--------------vKAISLCHLSY 202 Yarrowia lipoly...
O14169       178 CLWShrFIPACDr----------------yAPSIPLYHIGFNfayaERHFVMHpr--------------vKGVSMAVALF 227 fission yeast
XP_002492524 159 GLWSvdYYLLNQe----------------lLEGFDVVNIAVDlk-kSFQFANTvaae---------ggklHGISFLHLIW 212 Pichia pastoris...
XP_445934    137 GLWSvdWVEYGVet--------------gvLKHFDVVAITLSld-vARKFVDFfkeled------dnynlLSISVHFVST 195 Candida glabrat...
XP_002616561 158 GIWHlrFIKYLNqdpyfqevf-agvtsaqeYRHFDIIHISIDwh-dSMTYMAYneyidslq-ndrfkfkiTAISLIYITT 234 Clavispora lusi...
NP_985454    139 GLWQldWFEYGVst--------------tiLRGFPLVYIGLSld-qAAEFLDYsetlah------pdyrlHAVSLHHVAT 197 Ashbya gossypii...
CAH02034     139 GLWQldWYKYGVtt--------------atLKGFKIVAILPFta-mATKFVEYskslsd------dnyklHGVSLHFINS 197 Kluyveromyces l...
CAG85923     154 GVWDlgIIKFLNqegyfqnvfaagskntlgYKQFDIFHISVSwk-dSLHYINYnsyvdtlpkdgsvmfkaTGVSIIYLST 232 Debaryomyces ha...
EEQ46761     173 GIWDlnFLKYLNqsdyfqdk--fgkvnkfgYDQFDIFNISVNwr-dSIHYINYnfyldesspvdrvkiklTGVSLIYIST 249 Candida albican...
Feature 1                                                             
Q08959       198 WtsqfrLRLLPVLMknDIKVYLWTVNkpiDFKYLCEl------pIHGAITDDP 244 baker's yeast
XP_505153    203 Taa-ggDAVLRQIKeaGKLVYSWTINeeyIMNWAIAa------dIDGVITDYV 248 Yarrowia lipolytica CLIB122
O14169       228 Llp-hsQDFVDLVHaqGKQVFAWTLNtpsSIYLALIr------gCDGLLSDDP 273 fission yeast
XP_002492524 213 YhqkyrTELVKFANsnSLVLYLWTIN---DPYLVKEc-------GVNLITDDI 255 Pichia pastoris GS115
XP_445934    196 WteqfrFEILPILKreRIQLFVWTVNniiDVKYLNQysv--dpqMIGIVTDDP 246 Candida glabrata CBS 138
XP_002616561 235 WstdfvTKFMPILKkeDLKLYSWTVNtlaQLEYFSRiaksfqvrEYGIITDSP 287 Clavispora lusitaniae ATCC 42720
NP_985454    198 WapefhAEWQRFQRs-GIQLFLWTVNsalDTKYLAHv------pVAGVVTDVP 243 Ashbya gossypii ATCC 10895
CAH02034     198 WkpdfkKTVLPYLQenNLAVYLWTVNseiDIKYISSm------tITGIIVDDP 244 Kluyveromyces lactis
CAG85923     233 WstrflTKFIPRLKsqRMKLYMWTINtfdQFEYLMNigkiarisEYGIITDYP 285 Debaryomyces hansenii
EEQ46761     250 WsagflTKFVPLLRiqNLKLYSWTVNnklQYSYLNKvgklanlvEYGVISDYP 302 Candida albicans WO-1

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