Conserved Protein Domain Family
GDPD_GDE_2_3_6

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cd08574: GDPD_GDE_2_3_6 
Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE2, GDE3, GDE6-like proteins
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian glycerophosphodiester phosphodiesterase domain-containing protein subtype 5 (GDE2), subtype 2 (GDE3), subtype 1 (GDE6), and their eukaryotic homologs. Mammalian GDE2, GDE3, and GDE6 show very high sequence similarity to each other and have been classified into the same family. Although they are all transmembrane proteins, based on different pattern of tissue distribution, these enzymes might display diverse cellular functions. Mammalian GDE2 is primarily expressed in mature neurons. It selectively hydrolyzes glycerophosphocholine (GPC) and mainly functions in a complex with an antioxidant scavenger peroxiredoxin1 (Prdx1) to control motor neuron differentiation in the spinal cord. Mammalian GDE3 is specifically expressed in bone tissues and spleen. It selectively hydrolyzes extracellular glycerophosphoinositol (GPI) to generate inositol 1-phosphate (Ins1P) and glycerol and functions as an inducer of osteoblast differentiation. Mammalian GDE6 is predominantly expressed in the spermatocytes of testis, and its specific physiological function has not been elucidated yet.
Statistics
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PSSM-Id: 176516
View PSSM: cd08574
Aligned: 16 rows
Threshold Bit Score: 390.129
Threshold Setting Gi: 221481681
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              #                                         #                               
Q6W3E5       197 KPTIFGHRGAPMLGPENTMMSFEKAVEHgaHGLETDIHLSYDHVPFLMHDFDL---KRTTNIGEVQPESacenPAFFNWD 273 human
EEE20057     554 KPLLIGHRGLPELRPENTEVSFEAASAMgcSGLESDVVISADGVPFLLHDLTF---ARTTNVADVFPSRaktrADLFTWA 630 Toxoplasma gond...
Q9HCC8       223 KPGLVGHRGAPMLAPENTLMSLRKTAECgaTVFETDVMVSSDGVPFLMHDEHL---SRTTNVASVFPTRitahSSDFSWT 299 Homo sapiens
XP_002124613 177 KPLIFGHKGFPMIAPENTELSFQLSLEYv-DGFETDVAVSYDGVPFLIHDRTL---KRTSNVEDVFPDRkherAEMFTWG 252 Ciona intestinalis
XP_797443     83 KPKMFGHRGAEEIAPENTMISFETAVNNsiYGLESDIRISWDGVPFLMHDDTL---ERTTNVAAVFPNRtearAETFTWD 159 purple urchin
XP_417276    249 KPALIGHRGAPMLAPENTEMSFQKTIEHgaDGLETDVTISYDGVPFLMHDSTL---SRTTNIKEVYPNDtaqnAALFSWD 325 chicken
XP_682806    227 RPAVIGRRGAPMLAPEHTLMSFSKALQQkvTALEADVAISLDGVPFLMRDRTL---RRTTDVDRLFPARqdtdASFFNWT 303 zebrafish
XP_420208    369 KPALVGHRGAPMLAPENTLMSLRKAVDCdvQVFETDVMVSADGVPFLMHDEKL---TRTTNVQTVFPERaalnSTAFNWT 445 chicken
XP_691652     29 KPALIGHRGAPMLAPENTLMSFRKSLEFgvVAFETDVQLSKDKKPFLMHDCGKnflLRTTDVKDKFPGRd--gSNNFTLQ 106 zebrafish
XP_001377892 299 KPTFIGHRGAPMLAPENTQMSFEKAIEHgaTGLETDVTLSYDGVPFLMHDYTL---RRTTNIHEIMPTSshlpSSMFTWQ 375 gray short-tail...
Feature 1                                                                                        
Q6W3E5       274 FLSTLNAGKWFVKpelRPFYNMKPLSEADk--eRARNQSIPTLADLLTLAekeRKFVIFDLHRPPp---kHPLRHTFVRQ 348 human
EEE20057     631 DVAELNAGRWWLEk--DPYGTVKLVDPVVq--kEISEQKIPTLEWLMRKAvsaNRTLIYDLRCPDcdsntWGCGTKCVDL 706 Toxoplasma gond...
Q9HCC8       300 ELKRLNAGSWFLEr--RPFWGAKPLAGPDq--kEAESQTVPALEELLEEAaalNLSIMFDLRRPPq---nHTYYDTFVIQ 372 Homo sapiens
XP_002124613 253 ELQKLDVGTWFIR---DHPYHIFPSNYPEeirqRIKQQKLMSLNQLAVLAaehGKYMIFDLRMPPm---gHPHAYNYIHV 326 Ciona intestinalis
XP_797443    160 ELKQLDAGSWFLQk--DPFHTGMSIPRSTr--eQFDDQRILSLTDLMEIAkkyNKTVIFDMFGPPh----NHPYGNISEI 231 purple urchin
XP_417276    326 ALKELNAGAWFLKd--KPFSCMGSLSRADq--nQAMNQSIYKLSNFLRLAdsqNKLVIFDLYRPPe---kHPYRNSWINR 398 chicken
XP_682806    304 EIRSLNAGLWFLRd--DPYWTVQYMSEKDr--kRAGNQTVCSLAELLRVAaraNRSVIFSLRRPPp---nHPRHQLWVSD 376 zebrafish
XP_420208    446 DLQQLNAGSWFLEr--RPFPSVQSLSHGDr--vQATRQKIPSLGQVLDAAkesNISIMFDLRPEN-----HSDYQSFVNA 516 chicken
XP_691652    107 ELKTLNAGKWFSRs--DPFWTLSSLSEEEr--rEADNQTVPSLSELLDLVkkhNVSLIFDLKNENn---sTVFQSSDSFY 179 zebrafish
XP_001377892 376 TLETLNSGQWFFKa--QPFKFMEPLTKEDe--lKAKNQSVMKLSNFLRLAnreNKLVIFDLYRPPk---kHPYRDKWIIR 448 gray short-tail...
Feature 1                                                                                        
Q6W3E5       349 VVSVILas-kiEQHLIFWLPAHDrqYVRSVAPGF-QHVGRLVSIETLaknnISIINVDYKKlfp-ngLRDYKAANIHINV 425 human
EEE20057     707 TIDLVRkt--kCSRHLWWLQDKRq-EVKKEFPDVtIVTAADRHFRHDadnlTDVLNVEWVQlda-qlIKMWNERGYWVNA 782 Toxoplasma gond...
Q9HCC8       373 TLETVLna-rvPQAMVFWLPDEDraNVQRRAPGMrQIYGRQGGNRTEr---PQFLNLPYQDlpl-ldIKALHKDNVSVNL 447 Homo sapiens
XP_002124613 327 IIDAVLss-giKQSQVFWVLGPYadYVTSKAPGFnLVYGAKVNHFSKy--tMSGLILEYNTvsgeeiQSYKEKQNMDVIL 403 Ciona intestinalis
XP_797443    232 VVDTILqs-giRQNQIFWLGGNK--YVRQKAPGFvQTVEGRGDISDLleenITQVNAEYSEvad-teIHEYSQANISTNV 307 purple urchin
XP_417276    399 TLEVILnesgiRPHLVLWLENDMrsFVQSVAPGFqQTMGSKAPVEDLltdnIVKLNLAYTEmss-edIRKYAEANITTNF 477 chicken
XP_682806    377 ALKVIQrs-siQPEQVMWTPDWYrkKVRAAVPLLqQTTDEKLPVAELkergITTLTLHYSQara-qeIRQFSVSNVSVNV 454 zebrafish
XP_420208    517 TLAVILqs-giPLQQVLWLPDGFreQVKQQVPGVqQVYGRKRLQDEKe--pLLHVNLPYQDmss-eeIKQYRQDNISVNL 592 chicken
XP_691652    180 TTETINkl-giSPDKIWWLPPEYrhDVMKMEPGFkQVYNKQKEMLMDg---GNFMNMNFSSlsa-leISELRKSNVSVNL 254 zebrafish
XP_001377892 449 VLEVILnevgmKSHLVLWLPGQFraDVQMMAPDFkQVLGTKLPLSELlrmkINGLNLAYKDids-kdIKEFEKYGIFTNI 527 gray short-tail...
Feature 1                                
Q6W3E5       426 YTVNEPWLFSLAWCSRINSVTTDN 449 human
EEE20057     783 YVVSQPWLLSYFWCAGVDSVTTNS 806 Toxoplasma gondii GT1
Q9HCC8       448 FVVNKPWLFSLLWCAGVDSVTTND 471 Homo sapiens
XP_002124613 404 YTSSTEWTFSLAWCQGAFAYISDD 427 Ciona intestinalis
XP_797443    308 YIINEVWLYSLYWCVGATSITTSA 331 purple urchin
XP_417276    478 YVINEPWLFSLAWCSGAHSVTTNA 501 chicken
XP_682806    455 YPVNEPWLYSLMWCSGVQSVSSDA 478 zebrafish
XP_420208    593 YVVNQPWLFSVLWCSGVSSVTTNA 616 chicken
XP_691652    255 WVVNERWLFSLLWCSGVSSVTTNA 278 zebrafish
XP_001377892 528 YVINEPWLYSLAWCAGVHSVTTNT 551 gray short-tailed opossum

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