Conserved Protein Domain Family
GDPD_GDE2
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cd08608: GDPD_GDE2 
Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE2 and similar proteins
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE2 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 5 (GDPD5)) and their metazoan homologs. Mammalian GDE2 is transmembrane protein primarily expressed in mature neurons. It is a mammalian homolog of bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyze the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Mammalian GDE2 selectively hydrolyzes glycerophosphocholine (GPC) and has been characterized as GPC-GDE (EC 3.1.4.2) that contributes to osmotic regulation of cellular GPC. Mammalian GDE2 functions in a complex with an antioxidant scavenger peroxiredoxin1 (Prdx1) to control motor neuron differentiation in the spinal cord. Mammalian GDE2 also plays a critical role for retinoid-induced neuronal outgrowth. The catalytic activity of GDPD domain is essential for mammalian GDE2 cellular function.
Links
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Statistics
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PSSM-Id: 176550
Aligned: 5 rows
Threshold Bit Score: 680.029
Created: 9-Dec-2009
Updated: 2-Oct-2020
Structure
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Aligned Rows:
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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.
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1              #                                         #                               
Q3KTM2       227 KPAIIGHRGAPMLAPENTLMSFQKAVEQkiYGVQADVILSYDGVPFLMHDKTLRRTTNVEEVFPGRAyehSSMFNWTDLE 306 Gallus gallus
Q8WTR4       227 KPALIGHRGAPMLAPEHTLMSFRKALEQklYGLQADITISLDGVPFLMHDTTLRRTTNVEEEFPELArrpASMLNWTTLQ 306 Homo sapiens
XP_689132    227 APAIIGHQGAPMLAPENTLLSFNRALQRnvSGLETDVTISLDGVPFLMRDRTLRRTTNVRRVFPERQyedASLFNWTDLS 306 zebrafish
NP_001120593 227 KPQIFGHRGAPMLAPENTLMSFQRALEHqaYGLQADVMISYDGVPFLMHDRTLRRTTNIDGVFPELSfvhSSMINWTDLE 306 western clawed ...
XP_682806    227 RPAVIGRRGAPMLAPEHTLMSFSKALQQkvTALEADVAISLDGVPFLMRDRTLRRTTDVDRLFPARQdtdASFFNWTEIR 306 zebrafish

Feature 1                                                                                        
Q3KTM2       307 MLNAGEWFLRnDPFWTAGSLSRSDylEAANQSVCKLADMLEVIk-dNTSLILNFQDLPpdHPYYTSYINITLKTILASGI 385 Gallus gallus
Q8WTR4       307 RLNAGQWFLKtDPFWTASSLSPSDhrEAQNQSICSLAELLELAk-gNATLLLNLRDPPreHPYRSSFINVTLEAVLHSGF 385 Homo sapiens
XP_689132    307 TLNAGQWFLKdDPFWTVQYMSTTErwSVGNQTVCSLEQMLKLAakyKSSALFTVHRPPvnHPHHHDWVNLTLDTVLGSGI 386 zebrafish
NP_001120593 307 RLNAGDWFLKtDPFWTASSLSPSDatQAGNQSVCKLSELLVLAkeyNATVLLKVPPLPyeHPYADSYINLTVSTILASGI 386 western clawed ...
XP_682806    307 SLNAGLWFLRdDPYWTVQYMSEKDrkRAGNQTVCSLAELLRVAaraNRSVIFSLRRPPpnHPRHQLWVSDALKVIQRSSI 386 zebrafish

Feature 1                                                                                        
Q3KTM2       386 QQQAVMWLPDTERqLVRQIAPAFQQTSGLKLDAERLREKGIVKLNLRYTKVtneDVRDYMAANLSVNLYTVNEPWLYSIL 465 Gallus gallus
Q8WTR4       386 PQHQVMWLPSRQRpLVRKVAPGFQQTSGSKEAVASLRRGHIQRLNLRYTQVsrqELRDYASWNLSVNLYTVNAPWLFSLL 465 Homo sapiens
XP_689132    387 PQGQVMWTVDSNReMVRKVAPGFQQTSMQKLPFDTLHHNGISRLLLRYNQAseqDVRLYKENNISVSLYTVNEPWLYSLL 466 zebrafish
NP_001120593 387 SENLVIWVSDAQRaLVRDMAPGFQQASERKRDATSVRESGIAVLNLRYTDIqpeEIREYSAENLTLNTYTVNEPWLYSVL 466 western clawed ...
XP_682806    387 QPEQVMWTPDWYRkKVRAAVPLLQQTTDEKLPVAELKERGITTLTLHYSQAraqEIRQFSVSNVSVNVYPVNEPWLYSLM 466 zebrafish

Feature 1                                                                                        
Q3KTM2       466 WCTGVPSVTSDSsHVLRKVPFPIWLMPPDEYrLIWITSDLISFIIIVGVFIFQnyhndqWRLGSIRTYNPEQIMLSAAVR 545 Gallus gallus
Q8WTR4       466 WCAGVPSVTSDNsHALSQVPSPLWIMPPDEYcLMWVTADLVSFTLIVGIFVLQk-----WRLGGIRSYNPEQIMLSAAVR 540 Homo sapiens
XP_689132    467 WCSGVPSVSSEApQVLRKLHYPLWLMTPDEYcLIWISTDLISFAVVLGIFIFQnyhmirWRMSGMRSYNPEQIMLSAAVR 546 zebrafish
NP_001120593 467 WCSGVQSVTSDAsHVLSKVPFPVWLMPPDEYyLIWITSDVISFTVIVGVFILQk-----WRLGSIRTYNPEQIMLSAAVR 541 western clawed ...
XP_682806    467 WCSGVQSVSSDApHILKKVPRPIWIMSADEYgLIWITSDLISIAIVVGIFIFQk-----WKMSGMRSYNPEQIMLSAVVR 541 zebrafish

Feature 1                                            
Q3KTM2       546 RsSRDVKIMKEKLIFSEINNGVetTDELSLCSENGY 581 Gallus gallus
Q8WTR4       541 RtSRDVSIMKEKLIFSEISDGVevSDVLSVCSDNSY 576 Homo sapiens
XP_689132    547 RsSRDVNIMKEKLIFSEVSNGVngDEAYSENGFNYY 582 zebrafish
NP_001120593 542 RtSRDVRIMKEKLIFAEINSSMdtADDLSLCSDNHY 577 western clawed frog
XP_682806    542 RpSRDVNMMKEKLIFSEINNGVgsTDELSAFTGNGL 577 zebrafish

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