Conserved Protein Domain Family
GDPD_like_1

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cd08581: GDPD_like_1 
Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterase and similar proteins. They show high sequence similarity to Escherichia coli glycerophosphodiester phosphodiesterase, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Statistics
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PSSM-Id: 176523
View PSSM: cd08581
Aligned: 11 rows
Threshold Bit Score: 253.409
Threshold Setting Gi: 229861428
Created: 1-Mar-2010
Updated: 2-Oct-2020
Structure
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Aligned Rows:
Conserved Features/SitesClick to see Conserved Features Help
 
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_840458      8 FVAHRGYPAlYPENSLVGIRAAVQAGARYVEIDIQLSrQLTPYLCHDDNLKRLTGrnayltrlkddeidtlt-----vsc 82  Nitrosomonas eu...
YP_003074934   8 TVGHRGYPSrFPENTLPGFIAAIEAGVEAVEFDIQMSrDGIPVVFHDDTLERTTTaigalkeldfaelqni------sch 81  Teredinibacter ...
ZP_05062609   24 IVAHRGYPSqYPENTLIGLRAALDAGAQAIEFDVQCSaDGTPYVFHDDTLDRLTGasghiyrhndtyieql------fah 97  gamma proteobac...
ZP_01313018   12 FVAHRGYRSdYPENTLLAHQMAVEAGALFVETDIQMSaDGVPVLYHDIDMLRLSGlqqrldeftaeqlkqv------cvc 85  Desulfuromonas ...
ZP_05047016   15 LIAHRGYAKaFPENTLLSLDAAVSAGARFVEFDVQLTaDAIPVVLHDDTLLRTAGhevsifdiesvnlkhi------cvn 88  Nitrosococcus o...
YP_002513196   6 LIAHRGYAArFPENTLVGIQAAVSAGARFVEVDVQLSaDGVPVLFHDADLLRICGvpgavhewdfaalmrl------raa 79  Thioalkalivibri...
YP_742720      7 IIAHRGDVErHTENTLPAFRSALERGADGIELDVQFTaEGTPVVFHDRDLRRITGqrgnladledkald----------t 76  Alkalilimnicola...
ZP_01223886   15 LVAHRGLQAtYPENTALSVQKAIDAGALFVEVDIQLSlDKQPMVYHDISLERVSGegaliselsckelmal------pay 88  gamma proteobac...
YP_526955      9 VVGHRGNPEyFPENSLVGLTQTVAAGVTAVEFDVQCTqDGELILLHDEDFMRVAGvsahahsvsfaqacsi------dva 82  Saccharophagus ...
ZP_01452229   12 LVAHRGDRAgGVENTLAAFVHAARAGARFAECDIQFTcELIPVVLHDNTLGRLCDredlcvgdtdls------------- 78  Mariprofundus f...
ZP_04481042   57 TVAHRAAAGkAPEQTHAAMTRAVDLRPEHIEIDVQLSkDDVPVIVHDRTFARTTDvesvfpgrehdpigsftyreirrld 136 Stackebrandtia ...
Feature 1                                                                                        
NP_840458     83 pdvtcssgtepapIPRLAEFCRYLaqhpqVTTFVEIKsesiarFGLSKTMDAILPvidv-vhtQCVLISFDweLIALIKs 161 Nitrosomonas eu...
YP_003074934  82 ypqqfresfsplpIQSLADLSQALas-ysVEFFIEIKedclprIGPNQFLEKVLLasdv-lgeRRRIISFDydLLVLAKn 159 Teredinibacter ...
ZP_05062609   98 yperfgdsyhgnrVSSLSAVARLLasypeVDVFIEPKvhsldhFGVVPVMDRILRdtqs-lagNRHIISFHhrALAYARq 176 gamma proteobac...
ZP_01313018   86 eperfgsrfeqepLATLDAFVVWLadrpqVTAYIEIKpecrqgYGLNAVTQIMNRlrp--vfaQVVIISFDldSIGLARh 163 Desulfuromonas ...
ZP_05047016   89 eaarfgprfpeaqLSTLENIVLWLkelpeVTAFVEIKtqslqrFGIQRAVAQVLRvles-vkaQCVSISFEpqVIAVARe 167 Nitrosococcus o...
YP_002513196  80 eagrfvdrfadnpLTSLAQLAELLarhpgVTAFVEAKteavglFGEQSVLEAISRtlap-vaaQCVLISFSlpLLQGAVa 158 Thioalkalivibri...
YP_742720     77 lglrpgpdqagfhLPTLREACECLah-arVPLFVEIKtdalphHQVPTAVADVLRdsea-iasHRVLISFSeaALRIARs 154 Alkalilimnicola...
ZP_01223886   89 epkrlgkqfinetISSLEDVVKIIlqhpqVTLFVELKeesiatFGAETMLQNVCQvlrs-isdRAVLISFDysILATAKa 167 gamma proteobac...
YP_526955     83 eeqrfgskfrgekTPSLTQVCHALqn-gpEYVFVEIKseavgyLGFDGAMQKLLEataa-iaeQRIFISYHyeFLSFLKq 160 Saccharophagus ...
ZP_01452229   79 --altvacsprfeLLTLKALLQWLrkqpqLTLFVEVKpdilhrLSPTVVADLLAEalpadqlqQLVVISESgpIIDACKt 156 Mariprofundus f...
ZP_04481042  137 agswfgkkfagqrIPRLSAVVDHLdg-tgVGLFLELKnpn-dsPGLERVVDKVIDadyrwrgvPMTFLSFDadSLHRMAk 214 Stackebrandtia ...
Feature 1                                                                                        
NP_840458    162 h----qmYKTGWIIEHWTdeqs-----amaARLQPDYLFSSir-clPEKLDQLwpgPWQWVIYTVDDyaTALGYAEaGIT 231 Nitrosomonas eu...
YP_003074934 160 t----cnLPIGWCLPDTSaetl-----hkaRDLQPDLLIAEpl--nFIEGDLWq-gAWQWFIYNINThqEAQRWAVdGAA 227 Teredinibacter ...
ZP_05062609  177 q----gcHSIAWVLDDFShasr-----qlaQQLKPDILCTSyk-iaPDHLPVWg--DNEWMIYTADDlaRIEHLAQrGYR 244 gamma proteobac...
ZP_01313018  164 i----gaPRVGVVLSTWQtlqm-----svvSQIQPDVFFCDay-lvPDDADLAs-iKTPFVIYEVSEfsKAEYWLSrGAA 232 Desulfuromonas ...
ZP_05047016  168 n----niSATGWVLPTWDlv--------taLKLNPEYVFCNrt-lvPSGWKNFaeyPWNWVIYEVVEikEALEYAAlGVE 234 Nitrosococcus o...
YP_002513196 159 yqgsagwHDLGGVVDRWEdrn-------efAGLGLGWLFCDvn-glPGEGPLAf-eTARLAVYEVDDarQALDLVArGVA 229 Thioalkalivibri...
YP_742720    155 h----arVPVGWVLEAWDiasr-----eraEALQPDWLFCDtallpPGTAPLWa-gPWDWAIYEINEtgPAGALARrGVK 224 Alkalilimnicola...
ZP_01223886  168 n----gwPQVGPVLLEWShids-----deiNAIAGDYTFVDfn-iiPETENLDr-lTSKLVAYEVGTpaLAVTLANrGVA 236 gamma proteobac...
YP_526955    161 e----tgQKIGWVMTCYDdasl-----aqaDKLQPEYLICNkn-klPKTGKLPt-nTWAWFVYDVVElqEAIALQKrGVK 229 Saccharophagus ...
ZP_01452229  157 q----lgCRTGWVSETAHq-----------PESVIDYVFMPys-rtAEIEAWHa-rGVKVGLYTINSpdLASALLAqHAD 219 Mariprofundus f...
ZP_04481042  215 lr---stDRLLWLSPDVPststlrqvagwaDELGADYRRLTk----QDVGRVHr-aGLRLAVYTVNTrsAQSWVLSiRAD 286 Stackebrandtia ...
Feature 1               
NP_840458    232 LIETDTI 238 Nitrosomonas europaea ATCC 19718
YP_003074934 228 YIETNFV 234 Teredinibacter turnerae T7902
ZP_05062609  245 WIETDDI 251 gamma proteobacterium HTCC5015
ZP_01313018  233 QVETYNI 239 Desulfuromonas acetoxidans DSM 684
ZP_05047016  235 FIETMAI 241 Nitrosococcus oceani AFC27
YP_002513196 230 AIETFAL 236 Thioalkalivibrio sp. HL-EbGR7
YP_742720    225 AIETGRL 231 Alkalilimnicola ehrlichei MLHE-1
ZP_01223886  237 LFETFDI 243 gamma proteobacterium HTCC2207
YP_526955    230 FIESWNP 236 Saccharophagus degradans 2-40
ZP_01452229  220 LVETDHF 226 Mariprofundus ferrooxydans PV-1
ZP_04481042  287 SLITDYP 293 Stackebrandtia nassauensis DSM 44728

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