Conserved Protein Domain Family
GDPD_GDE4_like_1

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cd08613: GDPD_GDE4_like_1 
Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial homologs of mammalian glycerophosphodiester phosphodiesterase GDE4
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized bacterial homologs of mammalian GDE4, a transmembrane protein whose cellular function has not been elucidated yet.
Statistics
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PSSM-Id: 176554
View PSSM: cd08613
Aligned: 10 rows
Threshold Bit Score: 516.143
Threshold Setting Gi: 85709710
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                                     #                                                  
NP_770825     35 LIAAAAGVYINNTSLLAph-rdGKPVLLAHRGMAQRFderdvknDTCTAARMLPPTHdYLENTLRSMRASFEAGADVVEL 113 Bradyrhizobium ...
ZP_05083607    9 LLLAAAGIYLYNASWLTfgstsGKPKFIAHRGVHQTYhrenltnKTCTAERIDTPSHpYLENTIASMQAAFEAGADIIEL 88  Pseudovibrio sp...
ZP_04484928   26 LLLLAGFVFVNNTSLLAfp-ggDAPQLLAHRGMSQTFdmsgvdsDTCTAERINEPRHdYLENTIRSMKAAFDAGADQVEL 104 Stackebrandtia ...
ZP_04604795   49 VLLAAAGLYVGNSSTLAdp-ppGRPFQLAHRGLAQTFdlagvtnDTCTAERIHPPEHsYLENTLASMRAAFAAGADLVEF 127 Micromonospora ...
YP_001035586  14 CLALLFLIWLNNTSLFSnk-egQEYKILAHRGLAQTFdeskadwDSNTAAMIDPPTHpYLENTISSMQAAFDLGADAVEF 92  Streptococcus s...
ZP_05807772   27 VIVVAAGIWLNNSSLLSgr-paGGPVVLAHRGLAQDFdrtnlgsDTCTASRMLPPRHaYLENTIASMEAAFAFGADALEL 105 Mesorhizobium s...
ZP_04209792   16 ILILFVFVYVNNSSFFAkr-deGAPILLAHRGLSQTFsmegiegDTCTAERINKPEYpYLENTIPSMEAAFKAGADLVEF 94  Bacillus cereus...
NP_385184      9 LVVVIAIVWLLNTSLLApp-psGNAKILAHRGIHQVFhsegldnDTCTAERIETPRHsYLENTIASMRAAMESGADVVEL 87  Sinorhizobium m...
YP_759629      9 LAVLVAALWLRNTSLFTppssdGPPQFISHRGVHQTYhredlerDTCTATRIYPPTHdLIENTLPSMQVAFDAGADVVEI 88  Hyphomonas nept...
ZP_01040775   12 LALAVLILSVTNASWLApv-pvGSPQLIAHRGIAQDFdragverDTCTATRIEEPFHdYLENTRDGVLRADKLGAAFVEV 90  Erythrobacter s...
Feature 1                     #                                                                  
NP_770825    114 DVHPTTDGEFAVFHDWTLDCRTDGQGvTREQSMTELKtLDIGYGYTADGGRTFPFRGKGIGmMPTLSDVFAAFPd-RRLV 192 Bradyrhizobium ...
ZP_05083607   89 DIHPTTDNKLAVFHDWTVDCRTNGSGiTRDHSLAELKaLDIAFGYTADGGKSYPLRGTGIGvMPELDEVFLAFPd-KKFL 167 Pseudovibrio sp...
ZP_04484928  105 DVQMTKDDQFAVFHDWELDCRTEASGkTRDLTMAQLRkLDIGYGYTADGGKTFPFRGKGVGmMPSLDEVFDEFGs-QELL 183 Stackebrandtia ...
ZP_04604795  128 DVQATRDGHLAVFHDATLQCRTDGTGaVRDHTLAELReLDLGYGYTSDGGKTFPFRGRGFGlLPTVEEVLAEFPg-RELL 206 Micromonospora ...
YP_001035586  93 DVKLSKDKQLAVFHDATLEFKTGIKGeIQDYTMAELKkMDIGYGYTADGGKTYPFRGKGVGqMPTIDEVFESFPd-KEFV 171 Streptococcus s...
ZP_05807772  106 DVHPTTDGKFAVFHDWTVDCRTEGKGeTRGHSMAQLKtLDIGYGYTADGGKTFPFRGKGVGmMPSLDEVLAHFPa-RRFN 184 Mesorhizobium s...
ZP_04209792   95 DVQPTKDNNFVIFHDWTLDCRTNGKGvTRDFTTKELQaLDIGYGYTADGGKTFPFRGKGINlMPTLDEVLNHFPd-RSFL 173 Bacillus cereus...
NP_385184     88 DVHLTPDRQFAVFHDWTLDCRTDGSGvTQETPMSELKtLDIGYGYTADGGKSFPFRGQGAGqMPTLTEVFKALPe-GRFL 166 Sinorhizobium m...
YP_759629     89 DVHLTPDGEFAVFHDWTLDCRTEIEGvTNKTPMSVLRtLDAGYGYTADGGETFPLRGQGVGmIKSLPEVLDAFPe-GRFL 167 Hyphomonas nept...
ZP_01040775   91 DVAPTADGEVMLFHDWTLDCRTDGSGpVREATAEELRaLDIGYGYTADGGETYPLRGSGLGkMPTLVEVARALPprGRLM 170 Erythrobacter s...
Feature 1                                                                                        
NP_770825    193 VNVKSRDanEGEKLAAVLNALPAE-RRRMIMVYGGDEP-IEVIRRLTPEVRTISRGAIRSCLLGYIGYGWTGLMPAACRD 270 Bradyrhizobium ...
ZP_05083607  168 INFKEKElrSAKLLQGKLEKHPQW-KQQVWAVYGAQNP-TQYMADSTANTMGFDKARTKSCLKEYIALGWSGYVPQTCRN 245 Pseudovibrio sp...
ZP_04484928  184 LHIKSDDpaEGELLAKRLSTLSDK-RLRAITVYGGDKP-IAALREKMPKLRVMSKALMMECLGWYEGLSWIGTVPASCRN 261 Stackebrandtia ...
ZP_04604795  207 LHLKIERaaEGEALADLLARLPEQ-RRRTLTVYGGDLA-VAAFAARLPDVRVTSKKIMQDCLVPYLAGGWTGHVPDACHH 284 Micromonospora ...
YP_001035586 172 IEVKDGKleTYKVLWEKLKTLSPK-RLNKLSVCGASEEgVHWLRSQSSSLKLLSKKRMLNALIQYELLGFTGYIPEEMKN 250 Streptococcus s...
ZP_05807772  185 INVKSNDprEGEALAAWLSRLTPA-ERGYLSVYGGDKP-IAAVKAALPDMHTLSRASLTQCIARYAALGWSGYVPDACRH 262 Mesorhizobium s...
ZP_04209792  174 IHIKSDDenEGIQLADYLKKLPAK-RLEQLTVYGGDKP-IAAIEERIPSLRTMSKATMKKDLLTYIALGWTGYMPSSLKH 251 Bacillus cereus...
NP_385184    167 INFKSERreEGATLAVLLRFHPEW-RKQVFGVYGGTAP-TQETLRLVPGLRGYDRQSTIACLGRYAAYGWTGIVPDACRD 244 Sinorhizobium m...
YP_759629    168 INFKSRRavEGRVLAEMLDANPRW-RAQVWGVYGGPIP-VDALVERIPDMKHFTKGSAKDCPIDYLLMGWSGFVPDSCKD 245 Hyphomonas nept...
ZP_01040775  171 INFKSDDsaEADLVASKLAEAGRDpEVKGDAFYGAPTV-IGRVRELHPDAWAWSPAEARTCATEYLALGWSGYLPSSCRG 249 Erythrobacter s...
Feature 1                                                                                   
NP_770825    271 AmVLVPINVApWLWGWPDRFLARMnGANSAVFVLGPy--tGGEFSSGIDTPELFARLPQGYSDGIWTNEIEAIAG 343 Bradyrhizobium japon...
ZP_05083607  246 TiIGVPSNYAwAVWGWPNKFQSRLkAYGSEIILAGPy--kSQGAGAGIDTPEQLLEVPAIFNGYIWTDKIEALAP 318 Pseudovibrio sp. JE062
ZP_04484928  262 TqLHIPESYApWLWGWPHRFGERMaSVGTRVVLVAG----SGEHSEGFDSAESLRRIPEDFTGMVWTNSIEVVAP 332 Stackebrandtia nassa...
ZP_04604795  285 RqLHLPERYGrLLWGWPNRFVARMrEADTRVILVNG----SGEFSEGFDDPDDVDALPPGWTGGVWTNRIDVVAP 355 Micromonospora sp. A...
YP_001035586 251 AeLRIPLKYAkFLWGWPNKFMERMeAVNTRVELTAG----GSDLSEGFDHIHSLKDIPEGFEGYIWTNKINELHL 321 Streptococcus sangui...
ZP_05807772  263 GtLLIPINIAkWMWGWPNRFLDRMqAVDTQVYLLGPy--sGGGFSEGLDDPQLIDQLPDGYSGGISTDALDLVMP 335 Mesorhizobium sp. LM...
ZP_04209792  252 GeLHIPDKVApWLWGWPNRFLNRMdKADTRVIIVGGn---GFGFSSGFDSPEDIKRLPENYTGGIWTNRIDKIAP 323 Bacillus cereus Rock...
NP_385184    245 TlIIVPGNYArFLWGWPDRFAARMqAAGSEIILLGPy--sGGDFTSGIDSTDDLAFVPEGFSGYVWTNKAETIAP 317 Sinorhizobium melilo...
YP_759629    246 TlVLMPVDYApLLWGWPRAFEARMnAAGSQVILFGTpggtGNDGAPGIDTPAHLRKVPKGFGGYVWTDRIEALGD 320 Hyphomonas neptunium...
ZP_01040775  250 RtMVIPLNYQwLFWGWPNRLIARMeAHGGRIIVTGPy--vSGEPNTGLILPEQFTQIPDSYNGHIWVEDTFNLAP 322 Erythrobacter sp. NAP1

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