Conserved Protein Domain Family
Mayoviridae_RdRp

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cd23256: Mayoviridae_RdRp 
RNA-dependent RNA polymerase (RdRp) in the family Mayoviridae of positive-sense single-stranded RNA [(+)ssRNA] viruses
This group contains the RdRp of RNA viruses belonging to the family Mayoviridae, order Martellivirales. The Mayoviridae family consists of two genera, Idaeovirus and Pteridovirus. The genus Idaeovirus contains Raspberry bushy dwarf virus (RBDV), named after the host with which it was first associated (red raspberry, Rubus idaeu) and the disease which is characterized by bushiness (stunting and proliferation of canes); RBDV has recently been found causing an infection in grapevines. RBDV occurs in all tissues of the plant, including seed and pollen, and is transmitted in association with pollen, both vertically to the seed and horizontally to the pollinated plant; this is the only known method of natural spread of RBDV. The RdRp domain displays a right hand with three functional subdomains, called fingers, palm, and thumb. All RdRps contain conserved polymerase motifs (A-G), located in the palm (A-E motifs) and finger (F-G) subdomains. All these motifs have been implicated in RdRp fidelity such as processes of correct incorporation and reorganization of nucleotides.
Statistics
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PSSM-Id: 438106
Aligned: 10 rows
Threshold Bit Score: 555.123
Created: 17-May-2021
Updated: 17-Oct-2022
Structure
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Aligned Rows:
 
Feature 1: catalytic residues [active site], 4 residue positions
Conserved feature residue pattern:D [GS] D DClick to see conserved feature residue pattern help
Evidence:
  • Comment:contains the classic divalent-cation-binding residue D618 in the motif A of SARS-CoV-2 structure, which is conserved in most viral polymerases

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                         
QTW98919       12 GKLGSTEQQIQLYQNKTGNKVNDPVslaltplQKYHHMIKRDVKFaltdaaQSEYTKAATITYHKPeITQIATAIFGQFK 91  
YP_009305430 1373 GVVGSSSDSIQMYYDKAKKTVDEYAvlplsniDRYRHMIKRDIKPvldtslQSEYTKAATITYHQTdITQIATSFFTVIK 1452 Privet leaf b...
QTW98918       12 GKLGSTEQQIQLYQNKTGNKVNDPVslaltplQKYHHMIKRDVKFaltdaaQSEYTKAATITYHKPeITQIATAIFGQFK 91   Black mulberr...
QTW98917       12 GKLGSTEQQIQLYQNKTGNKVNDPVslaltplQKYHHMIKRDVKFaltdaaQSEYTKAATITYHKPeITQIATAIFGQFK 91   Black mulberr...
AUZ98001        2 GVLGSSAEQIQTYQNKTGNKVTDPVcvalspmQKYKHMIKRDVKFnltdgaQSEYTKAATITYHQPeITQVATAIFGQFK 81   Raspberry bus...
QDX18419     1362 GVIGSSATEIQRYYNKADKNVADAAvlrlssiERYKHMIKRDIKPvltdalQSEYTKAATITYHDTdITQIATSIFSVVK 1441 Birch idaeovirus
APX42302     1369 GVVGTSADMIQLYYNKAKRTVADHAvvqlssiDKYRHMIKRDIKPvlnealQSEYTKAATITYHDTdITQIATSFFTVIK 1448 Black currant...
AZN18337     1330 GKLGSSADQIQIYQNKTGNSVDEPVdlrlapvHKYQHMIKRDVKFnlteaaQSEYTKAATITYHKPeITQVATAIFGQFK 1409 Green Sichuan...
YP_003126903 1531 FVVGVAADAAQQYLDVVGDKIPKPSnlsfascNKFSHMVKQTRKPcsdtsvQTEFKRPATITYHGKdITQVASPVFRQLT 1610 Japanese holl...
AWD38948     1506 ISIGPNPEYCQEYQDVVGGKLCDPVamkltalNNFSHMIKQSRKPvldtsvQSDVKRPATITYHDKsVTQVTSPIFRQVC 1585 Maize pterido...
Feature 1                                                  #                                      
QTW98919       92 TRLLACK-KKFLNIPLDHDNDLSGYLSTYhlGSENNTFTEIDFSKFDKSQGELHQLIQDyILIRFGCDPEFVALWSTAHR 170 
YP_009305430 1453 QRIMQCK-KSKLIIPIDTESDISETLTRDhlGSETGDFTEIDFSKFDKSQNEVHQIMQDlILLRLGGSLELVSIWSQAHR 1531 Privet leaf b...
QTW98918       92 TRLLACKkKSFLNIPLDHDNDLSGYLSTYhlGSENNTFTEIDFSKFDKSQGELHQLIQDyILIRFGCDPEFVALWSTAHR 171  Black mulberr...
QTW98917       92 TRLLACK-KKFLNIPLDHDNDLSGYLSTYhlGSENNTFTEIDFSKFDKSQGELHQLIQDyILIRFGCDPEFVALWSTAHR 170  Black mulberr...
AUZ98001       82 TRLLACR-NKFLNIPLEHDNDLSGYLTKYhlGSENDTFTEIDFSKFDKSQGEIHQLIQDlILIKFGCDPEFVALWSTAHR 160  Raspberry bus...
QDX18419     1442 TRLMNVK-KDNLVIPLDDETNVSEFLTRHhlGSETGDFVEIDFSKFDKSQNEVHQICQDlILLRFGCDPEFVSIWSQAHR 1520 Birch idaeovirus
APX42302     1449 QRLMACK-KSNLCIPIDNESDISRCLTRDhlGSEQGNFIEIDFSKFDKSQNEIHQLMQDeILLRFGGSPEFVSVWSQAHK 1527 Black currant...
AZN18337     1410 TRLLSCK-NRKLNIPIDHDSDLSGYLTSYhlGSENNIFTEIDFSKFDKSQGELHQKIQDlILLKFGCDPEFVGLWSTAHR 1488 Green Sichuan...
YP_003126903 1611 DRLLAVL-MPNICVPICDNHDMAQWVANRfsSIGVYKSIEIDISQMDKSQMELHQLIQDkVFLRLGADPEFIFKWKEAHR 1689 Japanese holl...
AWD38948     1586 DRFLHGL-NENICVPLGEKHDIAMWFHNRfpSIDHLNTIETDISKMDKSQGAVHQYIQDmMFHVLGLDLEIIQMWSDAHG 1664 Maize pterido...
Feature 1                                                                 ###                     
QTW98919      171 SSSIYDQNVGIQFKTDfQRRTGDAFTFMGNSLVTAAMLAYVIskedekkiRYILIGGDDSLICSYgpisvpleplsdiFN 250 
YP_009305430 1532 HSRIKDFNCGISFSTDfQRRTGDAFTFLGNTLVTACMLSYVLshdderklRYMLVGGDDSLICGFepiqvqlsplstlFN 1611 Privet leaf b...
QTW98918      172 SSSIYDQNVGIQFKTDfQRRTGDAFTFMGNSLVTAAMLAYVIskedekkiRYILIGGDDSLICSYgpisvpleplsdiFN 251  Black mulberr...
QTW98917      171 SSSIYDQNVGIQFKTDfQRRTGDAFTFMGNSLVTAAMLAYVIskedekkiRYILIGGDDSLICSYgpisvpleplsdiFN 250  Black mulberr...
AUZ98001      161 CSSIFDQNVGIGFKTDfQRRTGDAFTFLGNSLVTAAMLAFIIsdsdrekiRYMLVGGDDSLICSYgpihvpleplcdiFN 240  Raspberry bus...
QDX18419     1521 YSKIKDMRCGIGFNTDfQRRTGDAFTFLGNTLVTAMMLSYVLsdediqslRYMMVGGDDSLICGFrpikirlepiatiFN 1600 Birch idaeovirus
APX42302     1528 HSRIKDFNCGISFTTDyQRRTGDAFTFLGNTLVTACMLSYVIsradataiRYMLVGGDDSLICSLtpitvdlnplstiFN 1607 Black currant...
AZN18337     1489 SSSIFDHNVGIGFKTDfQRRTGDAFTYLGNSLVTAAMLAFVIskadvekiRYILIGGDDSLICSYepitvpleplsdiFN 1568 Green Sichuan...
YP_003126903 1690 LCHMAEASVGFAFTTSwQRRTGDAATLLGNSVVTLVVNNYVLgfk---nfVAVGCVGDDFSGLYTkslsfdsnkypkmFN 1766 Japanese holl...
AWD38948     1665 RCQIRDSDCGFSFATLwQRRTGDACTLLGNTIVTAVVNHYVLdft---kfEAVGVIGDDFTGLYRtklnfnadlfgtlFN 1741 Maize pterido...
Feature 1                                                                                         
QTW98919      251 MSCKLIq-PACPYFASRYLIRRGSEILCVPDPYKLLVKMGRKDIPDNktsLEEIRTGLADSAKYLKDDEVKEKLSILVQA 329 
YP_009305430 1612 MSCKLIs-PSCPYFASRYIVRVRDRMVCVPDPMKLLVKMGRKDLPDNeesLEEVRIGLLDCCKPLLDDEVKQLVCILVQL 1690 Privet leaf b...
QTW98918      252 MSCKLIq-PACPYFASRYLIRRGSEILCVPDPYKLLVKMGRKDIPDNktsLEEIRTGLADSAKYLKDDEVKEKLSILVQA 330  Black mulberr...
QTW98917      251 MSCKLIq-PACPYFASRYLIRRGSEILCVPDPYKLLVKMGRKDIPDNkasLEEIRTGLADSAKYLKDDEVKEKLSILVQA 329  Black mulberr...
AUZ98001      241 MSCKLVq-PACPYFASRYLIRRGDEILCVPDPYKLLVKLGRKDIPDNqasLCEIRTGLADSAKYIFDDIVKQKLAILVQV 319  Raspberry bus...
QDX18419     1601 MSCKLIq-PSCPYFASRYVIRIEDHFVCVPDPMKLLIKMGRKDLPDNdasLEEVRIGLLDHSKPLVDDRVKQMACYLTQI 1679 Birch idaeovirus
APX42302     1608 MSCKLIq-PACPYFASRYIVRVGDELVCVPDPMKLLVKMGRKDLPDNedsLEEVRIGLLDSCRPLLDDRVKQMVCYLTQI 1686 Black currant...
AZN18337     1569 MSCKLIq-PACPYFASRYLIRRGEEILCVPDPYKLLVKMGRRDIPDNaesLKEIRTGLADSAKYLIDDEVKQKIAILVQI 1647 Green Sichuan...
YP_003126903 1767 FSVKVFesTSGFYLCSRWVLEVNGTFLWCPDIPRLAQRLSRKDIPQDeslLREVFTGMKDATASLFKIGVADQLALVMAV 1846 Japanese holl...
AWD38948     1742 FSVKVYesSSSLYLCSRFILDVNGKIVAVPDPLRLAQRLGRKDIPQEegmLREVFTGMRDASAPLFEFGVAEKLSYVMAL 1821 Maize pterido...
Feature 1                    
QTW98919      330 RYNKAAPSLYS 340 
YP_009305430 1691 RYRRESPSLFD 1701 Privet leaf blotch-associated virus
QTW98918      331 RYNKAAPSLYS 341  Black mulberry idaeovirus
QTW98917      330 RYNKAAPSLYS 340  Black mulberry idaeovirus
AUZ98001      320 RYNKAAPSLYD 330  Raspberry bushy dwarf virus
QDX18419     1680 RYNKSSPSLFD 1690 Birch idaeovirus
APX42302     1687 RYGKSSPSLFD 1697 Black currant leaf chlorosis associated virus
AZN18337     1648 RYNKAAPSLYD 1658 Green Sichuan pepper idaeovirus
YP_003126903 1847 KYRKEVGTILP 1857 Japanese holly fern mottle virus
AWD38948     1822 KYNKSAHTVIP 1832 Maize pteridovirus 1

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