1O1Z


Conserved Protein Domain Family
GDPD_TmGDE_like
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cd08568: GDPD_TmGDE_like 
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Glycerophosphodiester phosphodiesterase domain of Thermotoga maritime and similar proteins
This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermotoga maritime glycerophosphodiester phosphodiesterase (TmGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. TmGDE exists as a monomer that might be the biologically relevant form.
Links
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Statistics
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PSSM-Id: 176511
Aligned: 16 rows
Threshold Bit Score: 266.471
Created: 8-Dec-2009
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
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Conserved site includes 2 residues -Click on image for an interactive view with Cn3D
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.
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Feature 1            #                                         #                                 
1O1Z_A        14 IVLGHRGYSakylENTLEAFMKAIEAgANGVELDVRLSKDGKVVVSHDEDLKRlfgldvkIRDATVSELKEltd---gkI 90  Thermotoga mari...
NP_125959      8 ILLGHRGYMskypENTLLAFRKALEAgADGVEFDVWLTKDGKTIIMHDETLDRttnisgrQKDMTLDEIKKarvs-gqeV 86  Pyrococcus abys...
ZP_04876019    2 LVLGHKGYSarypQNTLLSFKKAIEYgADGVELDVWRTKDGEVVVSHDRNLEKvtgvdvdIKKPSYEELQDysie-gepI 80  Aciduliprofundu...
YP_001040282   2 IIIGHRGYPlkypENTVASFLGALLYgADGIELDVWLSADGQVVVIHDPDTQRvsnvkliVKESSYNELAKidlgmgqhI 81  Staphylothermus...
YP_002940720   3 KVLGHRGMGegndENSLLSLIRAVQIgADGVETDVWLTKDGSLLLAHDEDLKRlygvdakVKEITYKELKKiglisdekL 82  Thermotogales b...
YP_002428571   6 VIIGHRGFPakypENTIAGFLGAILHgAHGVELDVWLTQDEVPVVIHDRSTRRvagveldVKNATIEEIRRlhlgmgqgI 85  Desulfurococcus...
ZP_04878138   13 IVLGHGGFRdvypENTIIAFEKAIEAgADGIEFDVWLTKDGKLVTLHDGKFRTnde-vyyIKELSLKSLRKfhpy-gkfI 90  Thermococcus ba...
YP_002306582   5 MILGHRGFKgr-lENTLPAFRRALRY-ADGIEFDVRVAGDGKLVVHHDEGFQAngs-yqyIRELSLRELRRvhpn-grlI 80  Thermococcus on...
ZP_04875220    9 IILGHRGFRsnfpENTLKSFGEAIKAgADGIELDVWLSSDGYAIISHDEDLERvsgvhmkIKDSKLEDIKSvdigegerV 88  Aciduliprofundu...
YP_183811      2 LTLGHRGCRgk-iENTIPAFKRALRW-ADGVEMDVRVTGDGKIIVHHDEGFWSdge-yycVSELTFAEIKRlhpl-gklV 77  Thermococcus ko...

Feature 1                                                                                        
1O1Z_A        91 TTLKEVFENVSddKIINIEIKErEAADAVLEISKKr---KNLIFSSFDlDLLDEKFK---GTKYGYLIDEENYgsienf- 163 Thermotoga mari...
NP_125959     87 PTLEEAFSVLPedALVNIEIKDvDAVKEVASIVKEnn-pERVMVSSFIiEALREYRKydeETILGLLIDREEVvpmip-- 163 Pyrococcus abys...
ZP_04876019   81 PLLREVYEALPndAIINVEIKDtDAVKPSLKIAVEfdalDRTLFSSFNiKALKILRKlnkEARIGILVGGLNEvftip-- 158 Aciduliprofundu...
YP_001040282  82 PLLRDVLKAIPrrYIVAIEIKDvDAVEETIKIVNEmnwqDNIVYVSFFeKALEKIREldpNAKIGYNIGSLEAamnaf-- 159 Staphylothermus...
YP_002940720  83 TTLEKLYLELPnnAIVNVEIKDpDAAKFVGPLVNSfnaiERTIFSSFHhECLLDVKAntpDAKIGLLIGEDAKgkdpvgy 162 Thermotogales b...
YP_002428571  86 PTLEDVYRAVPegYRLYVEVKDiDAVHKVYEATVKhkrvSDVVFLSFIrDVLVEFRKldpGLRLALNVASLEEareal-- 163 Desulfurococcus...
ZP_04878138   91 PTVDELFEMFPn-LIFNIDVKDkEAVKPLLKLVEEfdsfDRVIFSSPSpETLRLIRKhskEAKLGFSIITETGivkva-- 167 Thermococcus ba...
YP_002306582  81 PTVRNVFREFSg-ALLNADLKEiDAVEGTLGLAERfgilENVVFSTENrEIAEHLIKecpSCKVGFSIVSYSSiah---- 155 Thermococcus on...
ZP_04875220   89 PTLDEVFSTLPknALINIEIKDvDAVEKSIDIVRKwraeDRVMFSSFNiDALREIRKkdeDTIIGLLIEKKETlpmip-- 166 Aciduliprofundu...
YP_183811     78 PSVEEVIRSVS--GFFDFDVKEpEAVEPLLNLVEKnslfASSVFSADNpDIVRKLISecpDCRVGFSIIGYSNall---- 151 Thermococcus ko...

Feature 1                                                                                    
1O1Z_A       164 -verveKERPYSLHVPYQaf---elEYAVEVLRSFRkkGIVIFVWTLNdp-----eIYRKIRREIDGVITDEVELF 230 Thermotoga maritima
NP_125959    164 --klkeELNLWSVNVPMEaipiigfEKTVEAIKWARslGLKVVLWTENdelfyvnrNLERLKGLFEVVIANDVEKM 237 Pyrococcus abyssi GE5
ZP_04876019  159 --shiySVKANYLNIPHQisg-vgeFTARALIHFYRlfGVRVAIWTPNsp-----dDLQLFEGLYEMVITDEVEKM 226 Aciduliprofundum bo...
YP_001040282 160 --klheKLKLYSINPPIQglqligfEKFREYLVNVKnvGAKTVLWTVDdp-----sLLKGLEELIDVVITNNVEAF 228 Staphylothermus mar...
YP_002940720 163 leellnRYKPYSLHLPVQlfdefglETGLAFLRLLRnnGIKIALWTINdp-----eLALKVRQHCDFFITDNLLSI 233 Thermotogales bacte...
YP_002428571 164 --klhrNIKLYSVNLPVVaplvigfNVFREYVREARelGLRVVVWDTEeyky-dysLYGEIASLIDEAIVNDPVRI 236 Desulfurococcus kam...
ZP_04878138  168 --llkrNLKLYSLHVPLDgisyvgfPMFVALLKWVRglGIKIFMWNYEmde---lfWLPRLKGLYDGIIADNAVKV 238 Thermococcus baroph...
YP_002306582 156 ---lagLKGLYSVHVPIDtigyvgyKALVVLLRTLRkrGTRIYLWNYQmde---lyWVPRLLPFVDAVISDDPARL 225 Thermococcus onnuri...
ZP_04875220  167 --qinkELKLFSVNLPIDaieifsfEKFKNTILWVKgmGLKIVLWADKdeiyylngNIDKLKDLVDIVITDNVVKM 240 Aciduliprofundum bo...
YP_183811    152 ---lptLKGLYSVHVPIDavsyigfRNLTAILRAARkrGLKIFLWNYRmde---vrWVPRLLPFVDAVISDDPARL 221 Thermococcus kodaka...

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