Conserved Protein Domain Family
GDPD_GDE1

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cd08573: GDPD_GDE1 
Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE1 and similar proteins
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE1 (also known as MIR16, membrane interacting protein of RGS16) and their metazoan homologs. GDE1 is widely expressed in mammalian tissues, including the heart, brain, liver, and kidney. It shows sequence homology to bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyzes the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. GDE1 has been characterized as GPI-GDE (EC 3.1.4.44) that selectively hydrolyzes extracellular glycerophosphoinositol (GPI) to generate glycerol phosphate and inositol. It functions as an integral membrane-bound glycoprotein interacting with regulator of G protein signaling protein RGS16, and is modulated by G protein-coupled receptor (GPCR) signaling. In addition, GDE1 may interact with PRA1 domain family, member 2 (PRAF2, also known as JM4), which is an interacting protein of the G protein-coupled chemokine receptor CCR5. The catalytic activity, which is dependent on the integrity of the GDPD domain, is required for GDE1 cellular function.
Statistics
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PSSM-Id: 176515
View PSSM: cd08573
Aligned: 18 rows
Threshold Bit Score: 309.959
Threshold Setting Gi: 44889048
Created: 28-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           #                                          #                                 
Q9NZC3        67 AIAHRGGShd-aPENTLAAIRQAAKnGATGVELDIEFTsDGIPVLMHDNTVDRTTDgt-----grLCDLTFEQIRKLNPA 140 human
XP_001181885  86 VIAHRGGAad-aPENTLLAIQEAKKnGADGVEVDVEITkDGVAILMHDATIDRTTDgt-----gfISQMMWDEVSQLNAA 159 purple urchin
XP_002422873  89 IVGHRACGld-aPENSLSSLKKVAKeGMKAVEFDVLLTsDNIAIVFHDHSLIRMTNcd-----klVEKTEYEEIQKLDIS 162 human body louse
XP_002161293  46 IIAHRAGKdq-aPENTLLAIETAYKnGATAIEVDLCFTkDKVPVLLHDDTLDRTTNgt-----glICKTSYKDVLQLNAA 119 green hydra
NP_501176     65 IGGHRGAPks-fPENSMAGFAQAKAdGADLIEFDVALTkDGKAVLMHDDDLDRTTDmkgpirdktRAELDRCDISATFKR 143 nematode
XP_973098     83 TVAHRGAGld-aPENSLPAFKMCHDqGCDAIEFDITLTkDGVPVVFHDNCLERMSDcn-----lvIGEHKWEDLCNIDIS 156 red flour beetle
XP_002109742  44 IVGHRAGGyd-aPENSLEAIRMAKKnGAAGIEIDLAFSkDDAGVLMHDPSLGRTTNgpn----vdVDQLTLKQLKALNVT 118 Trichoplax adha...
XP_001891881  66 VGGHRGAPkv-aPENTIESFEKAKLsGMDLVEFDLTLTkNGIVVIMHDDDLMRTCGep-----glIASFTLEELGNKNAG 139 agent of lympha...
NP_506077     33 FGGHRGSPkr-aPENTIESLKKAKEdGCDLVEFDIHMSsDGVPLLMHDDTTERTGNak-----lkVEHSTWQQLEAVVLN 106 nematode
NP_498106    120 IGGHRGSAhddiPENSLEAFSAVKReGGQLAEMDIQITlDGVPVICHDANTVRVTGvd-----kdISTMNITEFRKLRFT 194 nematode
Feature 1                                                                                        
Q9NZC3       141 ANHrlrnd------fpdekIPTLREAVAECLnhNLTIFFDVKghahkatEALKKMYMEFPqLYNNSVVCSFLPeVIYKMR 214 human
XP_001181885 160 AKFssssrs----kisyeaVPTLDEVVQECLnlKLRIFFDVKayskqmvDELIKLYQKYPgLYDNGMICSFFPtTIYRVR 235 purple urchin
XP_002422873 163 VNHpfskn------fpkekIPTIDEFIKYCIdnNIRMFIDLKsnsksikDKIIELYKCHPrLYELAVVSTFNPiLIYKIR 236 human body louse
XP_002161293 120 AKFgrsvk-------nvvkVPTLSEAVQFCVekNIIIDLDVKsnsmetvETLKFLQKTVPgVTDIIFVTSFHAhILYAVR 192 green hydra
NP_501176    144 TAPgdhcrla---tvsrerVPDMEDVVKWAVenNTRMLFDVKdsdnelvDQIANLFQKYN-LYDKAIVCSFFPwVVYRIK 219 nematode
XP_973098    157 VKHlykdr------faktnIPTLEQTVTQLLasGQRMFIDIKdnnkkfvKIIHGLFDRYPdLYSRAVVSSFNPiLIYLIR 230 red flour beetle
XP_002109742 119 VNErlknr------fdevkIPTIEEALKEAKrlKLKVIVDVKgeatktaDALIPLFEKYN-LYKEAIVTSFNPlVVYKVR 191 Trichoplax adha...
XP_001891881 140 KTFqslgsfdsqtaskvyhIPTLEATVKYCRenNLKMLFDVKdsssemvSQIVSIISSNN-LYGDVIVSSFFPwVPYAVK 218 agent of lympha...
NP_506077    107 PVNgvn-----------akIPRLNEAIDFCVenGLKMLFDMKndnlklmEAVSEEIKKRN-LYDQVMVSSFNPiVPWRLK 174 nematode
NP_498106    195 GTNi--------------sLPTFEEAVSYCVanDIMMIWDVKnvdenllKQFVIQMKTHN-LYSKVLVSGFNPiDTYKVK 259 nematode
Feature 1                                                                                        
Q9NZC3       215 qtDRDVITALTHRPwslshtgd------gkprydtfWKHFIFVMMDILLd-WSMHNILw--yLCGISAFLMQKDfVSPAY 285 human
XP_001181885 236 qlDSEILTALTTEPyfisgqvmk-----rwtgpptwWKLLPFAIIDKILq-WSLHNWLw--iLCGNSAMLLQKDtISQNV 307 purple urchin
XP_002422873 237 seDPKIACSLAWRPyyysheefngelgptnprttslFYLIFLRILNYVHe-WVLWKFGy--yILGLSALLLHKDmITWDV 313 human body louse
XP_002161293 193 rhCPDFLIGIIWDPtyivytft-------gdenykgWAAPIYWCLDIIYg-FLVHSFIp--dFLGVSLVSIEKDmLSKNY 262 green hydra
NP_501176    220 kgDQKILTGLTWRLkfwsyhdie-----nirprysgPKQMLFEMIDVAHv-WLLKKVTp--wYLGADLLLTNNLdISQAL 291 nematode
XP_973098    231 kgNPKIVCSLAWRPhafaydsfnfpmgpgirrgkvwYKHFLLVLCDFIHe-WALTRITy--yLLGLSVILLHKDaINGRT 307 red flour beetle
XP_002109742 192 rrNPRIIGGIIYFSyfvtdfl--------qrrnrsaTIIKLATLLDTFIy-WSFYSWAv--pMTGSSIVSIHKDiISSEE 260 Trichoplax adha...
XP_001891881 219 kiDPNILTGVTWRPyfatykdle-----cciprfsgLKHFLALLLDYINm-KLLDSFLp--qFLGVEMLLLYEKeISSGL 290 agent of lympha...
NP_506077    175 kiDPKIITGITVDRsyysysddh----rkspfstsfFAHFWNEILDEINmiIQPLYILp--rFLGVDVVMISFQlISENA 248 nematode
NP_498106    260 maDPKILTGFTWRNwelsttdea-----ariprftgALNAIASVLDVLV--FGLARSLimpkFLGSDVIFYHVNdISSFL 332 nematode
Feature 1                                              
Q9NZC3       286 LKKWSAKGIQVVGWTVNtFDEKSYYEShLGSSYITDSM 323 human
XP_001181885 308 IRYWSARGLTVIPWTVNkKTDKEFLAS-LDCHYITDCI 344 purple urchin
XP_002422873 314 IRYWTKRGVRVIAWTVNlPTEKQYFEKiFKITYLTDTL 351 human body louse
XP_002161293 263 VEKWRAKGIEVAAWTVNkLIEKNFLLH-LGVPIITDSI 299 green hydra
NP_501176    292 IMDQRRRGMRVAVWTVNdMAEMHWMLKtLNIPILTDYP 329 nematode
XP_973098    308 VYDWRKRGLRVMAWTVNtPAEKQFLARvLKITYLTDTL 345 red flour beetle
XP_002109742 261 LHYWNSRGISVMTWTVNsKIQKQYFNQyLKIPYMTDCI 298 Trichoplax adhaerens
XP_001891881 291 VDRMKNLDIQVVAWTVNdPRQMLYLIDtLQVPFLTDLP 328 agent of lymphatic filariasis
NP_506077    249 VRESNEKGFSVISWTVNdEDYMRILTK-LNVPFLTDIG 285 nematode
NP_498106    333 KTDAAANNIYLAGWTSNnPTEQVWLRDyLNVPFLTDNV 370 nematode

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