Conserved Protein Domain Family
GDPD_Rv2277c_like

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cd08580: GDPD_Rv2277c_like 
Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized bacterial protein Rv2277c and similar proteins. Members in this subfamily are bacterial homologous of mammalian GDE4, a transmembrane protein whose cellular function has not yet been elucidated.
Statistics
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PSSM-Id: 176522
View PSSM: cd08580
Aligned: 12 rows
Threshold Bit Score: 402.86
Threshold Setting Gi: 238755554
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            #                                         #                                
Q50687       31 PMIVAHRAGTRDfPENTVLAITNAVAAgVDGMWLTVQVSSDGVPVLYRPSDLATLTDGaGPVNSKTVQQLQQLNAGWNFt 110 Mycobacterium tu...
NP_668288    27 PQIIAHRAGTADaPENTFPAISKALANgADAIWITLQLSKDNIPVLYRPSDLKELTNEsGSVSAYTASQLAEIDASIAYn 106 Yersinia pestis KIM
ZP_05973882  30 PHIVAHRAGTADaPENTLYAIELAKKNnADAIWLTVQLSQDNQLVLYRPSDLDALTDKnGMVSNYTAKQLSQINAAYKFn 109 Providencia rust...
NP_669591    24 PLIVAHRAGTADyPENTVHAISMAIKNqADVIWLSIQLTRDGIPVLYRPSDLKSLTNSeGLISEHSLLEIKMLDAAHFFk 103 Yersinia pestis KIM
YP_743935    32 PLMIAHRGGTGDaPENTIEAIRQAMAHrVDAIWLTVQLSRDGIPVLYRPADLSTLTDGdGKTAAFTAAELSRINAGWQFr 111 Granulibacter be...
YP_584352    65 PKLVAHRGGTADrPENTLVAIESALRQrADMIWLSVQTSLDGVPVLYRPSDLSSLTNGsGKVADFSAATLATLNAGWSFa 144 Ralstonia metall...
NP_253480    31 PLLVAHRAGTADyPENTLLAIRKALDNgADALWLSVQLSADGHPVLYRPADLAVLTQGaGAVGQSSLAELARLNAGYMFk 110 Pseudomonas aeru...
YP_007195    23 PWIISHRGGGENfPENTLLAFSKSMEIgCDAIEIDVQVTKDGVVVVYHPEDLKKWTNGyGAISSYTWEEISTLNAGYNYk 102 Candidatus Proto...
CAH37077     39 PRIVAHRGGAADaPENTLDAIRAAVANrADAIWLTVQLSRDGVPVLYRPADLSALTRSsGPVAGHTAAQLAQMNAGWQFr 118 Burkholderia pse...
YP_260401    34 PLIVAHRGGAADfPENTLLAIDNALRNnVDMLWLTVQLSRDGVPVLYRPADLSTNTQAtGAVNQHTLAQLHALNAGWNFk 113 Pseudomonas fluo...
ZP_02405708  39 PAIVAHRGGTGDaPENTVYAISKALQNsADAVWITLQLSSDGVPVLYRPTDLKVLTSGsGPISALSAAQLARLDAAYYYn 118 Burkholderia pse...
ZP_04616892  25 PLLVAHRGGTADlPENTIDAIHHALEHqADIIWVSVQLSKDKIPVLFRAKDLNSTTDGeGRVEDFTLSELQTLDAAYQFe 104 Yersinia ruckeri...
Feature 1                                                                                       
Q50687      111 tpgvegh---pyrqratpIPTLEQAIGATPpdMTLFLDLKQTPPq--pLVSAVAQVLTRTg-----AAGRSIVYSTNADI 180 Mycobacterium tu...
NP_668288   107 kkhdikp----sagslfgIPTLDDVLKKYPd-TIFYLDIKSPDAdpivLAKALQKTLLATskgeknRLIRTRVYSTNDDY 181 Yersinia pestis KIM
ZP_05973882 110 qknnak-----lpalqttITTLENVLSQYPd-TTFYIDLKSPDAnpetQAQAILALLNKTk-----AFNQVRFYSTNDSF 178 Providencia rust...
NP_669591   104 tegqyf-----yrgrgmkIPSLQDVFTRFPk-NHFILDIKSPDAdpviMANILSTLITSNn-----LLDKVTLYSTDRKY 172 Yersinia pestis KIM
YP_743935   112 rgdsyp-----wrdhpvgIPTLRAALRAIPsdMPIILDMKALPAa--pQTRAVARVLEEEq-----AWGRVTIYATDAAY 179 Granulibacter be...
YP_584352   145 emgsdgvkrypyrdspvgIPTLQQALRAIPanVPIILDMKSMPAs--aQTAAVAAVLDAEs-----AWSRVLIYSTEADY 217 Ralstonia metall...
NP_253480   111 aedgsyp----yrqkplrIPTLRQALRAIPpqVPVFLDMKSLPVe--pLVDAVAGELERQk-----AWSRVRFYSTEKAA 179 Pseudomonas aeru...
YP_007195   103 pecgyp-----frdknlhIPRIEEVLHHFPk-TLIIVDMKSLPTe--tLIKALIRAISDE------ESIRLIFYSTNAEH 168 Candidatus Proto...
CAH37077    119 daggryp----yrarpvgIPTLRDALRAIPpaMPIVLDMKAVPAa--pQAKAVADVLTSEa-----AWPRVTIYSTDAAY 187 Burkholderia pse...
YP_260401   114 qtvadgqvsfpyraqpvsLPSLRQALMAIPesVPVILDMKALPAa--pQAQAVARLLEQLh-----AWNRVLIYSTDAGY 186 Pseudomonas fluo...
ZP_02405708 119 pkdgyp-----lrgkgygIPSLEEVLKTFKd-TFFYLDIKSPDAdpnrMATALSQVLERTg-----ALSRVRIYSTEAKY 187 Burkholderia pse...
ZP_04616892 105 ydgekk-----fkglgikIPTLSSVLNRFPa-TQFFIDIKAQTKdydeVAQHISAVILNNn-----AADRTRVYSTKHRF 173 Yersinia ruckeri...
Feature 1                                                                                       
Q50687      181 TAAASRQEgl-------qvAESRDVTRQRLFNMALNHHCDPQPDPGKWa----GFELHRDVTVTEeFTLGSGISAVna-e 248 Mycobacterium tu...
NP_668288   182 LNALDTVNkssdpshkvqrFESRDTTRTVLANITMDHQCELPIDNKERw---yGLELHRKVEVVEkYTLGEGRSSAil-- 256 Yersinia pestis KIM
ZP_05973882 179 LKALKPLSsqt------qlFESRDETRTMLANSVMSHQCSVENDKSATrw--yGFELHRKVEVVEkYTLGEARSPAtl-- 248 Providencia rust...
NP_669591   173 LDALPDSIn---------kFENRHVTRKILTNAVMANDCKISAKRDKTqy--hAFELRREVKVVEkFTLGKGASRAql-- 239 Yersinia pestis KIM
YP_743935   180 QQSFAAYPqa-------rlFESRDATRARLLGVQLDQRCDHPPPAHARv----AFELHRSLIVVEhFTLGEGRSTVqa-t 247 Granulibacter be...
YP_584352   218 QNTFAAWPra-------rlAEARDVTRRRLVSATLGQRCDAPSVSGVWa----GFEMRRNVDVVEtFTLGEGHSPVqa-v 285 Ralstonia metall...
NP_253480   180 NDYLTQRYadr-----arqFESRDATRNRLVGLAFGERCEAPPAGGTWm----GIELRRELTVTErFTLGESSYKVpaaq 250 Pseudomonas aeru...
YP_007195   169 IDLLNFYKahw------itFEKRDLTRQRFLEFSQTAQSALPIDSVWM-----GFELKRKMMVTEtFTLGNGNSTVef-h 236 Candidatus Proto...
CAH37077    188 QTAFASYPqa-------rlFESRDATRGRLVDVLLGGACERAPEAPATapiwtGFEMHRNMTVSErFTLGEGVSPVka-t 259 Burkholderia pse...
YP_260401   187 QQAFAPYPqa-------rlFESRDSTRDRLASVALAHHCNAPPAPGSWv----AFEYRRPVQLVEtFTLGEARSQVda-r 254 Pseudomonas fluo...
ZP_02405708 188 TAAVQAMPh----------FETRDETRTALANVTMNHTCQLSPKSGSWy----GYELRRDVTLIEeTTLGVSPPSPsr-l 252 Burkholderia pse...
ZP_04616892 174 YRKLDPQIk---------tFEPRNYTRKTMANVLMADHCRVDDRREAQkleyhAFELRAPVYVVEtLTLGKGQSAAll-- 242 Yersinia ruckeri...
Feature 1                                                        
Q50687      249 lWDEASVDCFRSQs-GMKVMGFAVKtvDDYRLAHKIGLDAVLVDSPLAA 296 Mycobacterium tuberculosis
NP_668288   257 sWDKEAMDCFRKNa-NAHIILFGINtqDDYKKAKELQANGVMVDSPAQF 304 Yersinia pestis KIM
ZP_05973882 249 sWDKEAIDCFRKNg-NAYIIVFGVNneSDYQLAKDIGANAVMVDSPKAF 296 Providencia rustigianii DSM 4541
NP_669591   240 vWNQQAMDCFKKNs-NSKILLIGINsaEDYQLAKDLGADYVMTDSPATA 287 Yersinia pestis KIM
YP_743935   248 mWTPATIACFRRHp-DVKIVAIAVDnaDDDRLAACLGVDAILTDSPQHM 295 Granulibacter bethesdensis CGDNIH1
YP_584352   286 lWTKASVHCYRSKv-SANLVAFGVNdqADYCEAKRLGLDAVMVDSPEKM 333 Ralstonia metallidurans CH34
NP_253480   251 lWTRKAMDCVRRE--PVKVVMFGIEtaEDYRTARTLGADAVMSNSPRKM 297 Pseudomonas aeruginosa PAO1
YP_007195   237 lWTPQLVSYLRNSttKLFLVLFGINkkDEWEEALTLNVDAVYTDNPCRI 285 Candidatus Protochlamydia amoebophila UWE25
CAH37077    260 lWTPATVACFRRRa-DVRILAIAVNdaDDYRTAACLGLDAVLADSPREM 307 Burkholderia pseudomallei K96243
YP_260401   255 lWTPAAVDCFQSRg-KVRMLAIGINtaEDYQAAACLKMDAVLVDSPRAM 302 Pseudomonas fluorescens Pf-5
ZP_02405708 253 vWNLEAKTCFIDTg-KGSVLLIGVNsaDDYATAASLGAAAVLVDSPAQA 300 Burkholderia pseudomallei DM98
ZP_04616892 243 vWNSKVTQCFKRNs-LSKLMLIGIDsqSDYDLAKELQADFVMVDSPQRA 290 Yersinia ruckeri ATCC 29473

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