Conserved Protein Domain Family
Tombusvirus-like_RdRp

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cd23236: Tombusvirus-like_RdRp 
RNA-dependent RNA polymerase (RdRp) in the genus Tombusvirus of positive-sense single-stranded RNA [(+)ssRNA] viruses, within Procedovirinae subfamily; and related RdRps
This group contains the RdRp of RNA viruses belonging to the Tombusvirus genus within the subfamily Procedovirinae, family Tombusviridae, order Tolivirales. Tombusvirus is a genus of plant viruses. There are 17 species in the Tombusvirus genus: Artichoke mottled crinkle virus, Carnation Italian ringspot virus, Cucumber Bulgarian virus, Cucumber necrosis virus, Cymbidium ringspot virus, Eggplant mottled crinkle virus, Grapevine Algerian latent virus, Havel River virus, Lato River virus, Limonium flower distortion virus, Moroccan pepper virus, Neckar River virus, Pelargonium leaf curl virus, Pelargonium necrotic spot virus, Petunia asteroid mosaic virus, Sikte waterborne virus, and Tomato bushy stunt virus. Symptoms associated with this genus include mosaic. The name of the genus comes from Tomato bushy stunt virus. 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: 438086
Aligned: 14 rows
Threshold Bit Score: 1046.52
Created: 28-Jun-2020
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                                                                                        
NP_062897    325 LEVRTGPPNAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVERNGkLARTPQPTKGAFGRLSPFRKAVCEKVG 404 Tomato bushy st...
AFM91097     324 LEVRTGPPNAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVEKNGiLTRTPQPTKGAFSRLSPFRKAVCEKVG 403 Lettuce necroti...
AAM49803     325 LEVRTGPPNAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVEKNGiLTRTPQPAKGAFSRLSPFRKAVCEKVG 404 Pear latent virus
NP_613260    325 LEVRTGPPIAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVEKDGkLTRTPQPTKGSFGRLSPFRKAVCEKVG 404 Cymbidium rings...
AAY98781     324 LEVRTGPPNAKDRSIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVERNGiLTRTPQPAKGAFSRLSPFRKAVCEKVG 403 Lisianthus necr...
NP_945114    359 LEVRVGPPNAKNRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERAFCVERNGkLARTPQPTKGAFGRLSPFRKAVCEKVG 438 Pelargonium nec...
AAT67237     325 LEVRTGPPNAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVERNGkLARTPQPTKGAFGRLSPFRKAVCEKVG 404 Tomato bushy st...
YP_002308429 325 LEVRTGPPNAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVERNGkLARTPQPTKGAFGRLSPFRKAVCEKVG 404 Grapevine Alger...
AXY96388     325 LEVRTGPPNAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVERNGkLTRTPQPTKGAFGRLSPFRKAVCEKVG 404 Moroccan pepper...
ACX53276     325 LEVRAGPPNAKDRNIFMVAGCPSQARFLVHNHCLKNLKRGLVERVFCVERNGkLARTPQPTKGAFGRLSPFRKAVCEKVG 404 Carnation Itali...
Feature 1                                                                                        
NP_062897    405 VAHRLGYdGFLSYYSGAKLRTYTRAVESLHITPVsERDSHLTTFVKAEKISTsKGDPAPRVIQPRNPRYNVELGRYLRHM 484 Tomato bushy st...
AFM91097     404 VAHRLGYdGFLSYYNGAKLRTYKRAVESLHITPVsERDSHLTTFVKAEKISTaKGDPAPRVIQPRNPRYNVELGRYLRHM 483 Lettuce necroti...
AAM49803     405 VAHRFGYdGFLSYYNGAKLRTYTRAVESLHISPVcERDSHLTTFVKAEKISTsKGDPAPRVIQPRNPRYNVELGRYLRHM 484 Pear latent virus
NP_613260    405 VAHRLGYdGFLSYYSGAKLRTYTRAVESLHITPVsERDSHLTTFVKAEKISTsKGDPAPRVIQPRNPRYNVELGRYLRHM 484 Cymbidium rings...
AAY98781     404 VAHRLGYdGFLSYYSGAKLRTYTRAVESLHISPVcERDSYLTTFVKAEKISTsKGDPAPRVIQPRNPRYNVELGRYLRHM 483 Lisianthus necr...
NP_945114    439 VAHRLGYdGFLSYYSGAKLRTYTRAVESLHITPVsERDSHLTTFVKAEKISTsKNDPAPRVIQPRNPRYNVELGRYLRHM 518 Pelargonium nec...
AAT67237     405 VAHRLGYdGFLSYYNGAKLRTYTRAVESLHITPVsERDSHLTTFVKAEKISTaKGDPAPRVIQPRNPRYNVELGRYLRHM 484 Tomato bushy st...
YP_002308429 405 VAHRLGYdGFLSYYSGAKLRTYTRAVESLHITPVsERDSHLTTFVKAEKISTaKGDPAPRVIQPRNPRYNVELGRYLRHM 484 Grapevine Alger...
AXY96388     405 VAHRLGYdGFLSYYNGAKLRTYTRAVESLHITPVsERDSHLTTFVKAEKISTsKGDPAPRVIQPRNPRYNVELGRYLRHM 484 Moroccan pepper...
ACX53276     405 VAHRLGYdGFLSYYNGAKLRTYTRAVESLHITPVsERDSHLTTFVKAEKISTsKGDPAPRVIQPRNPRYNVELGRYLRHM 484 Carnation Itali...
Feature 1                                                     #                                  
NP_062897    485 ESKLMKAVDGVFGETTCIKGYTADEVGAIFRAKWdrFDKPVAIGLDASRFDQHCSVEALQYEHSFYRAMYPGNKLLGKLL 564 Tomato bushy st...
AFM91097     484 ESKLMKAVDGVFGETTCIKGYTADEVGAIFREKWdrFDKPVAIGLDASRFDQHCSVEALQFEHSFYRALYPGNKLLSKLL 563 Lettuce necroti...
AAM49803     485 ESKLMKAVDGVFGETTCIKGYTADEVGQIFRDKWdkFDRPVAIGLDASRFDQHCSVEALQFEHSFYRAMYPGNKLLSKLL 564 Pear latent virus
NP_613260    485 ESKLMKAVDDVFGETTCIKGYTADEVGAIFRRKWdrFDKPVAIGLDASRFDQHCSVEALQYEHSFYRALYPGNKLLSKLL 564 Cymbidium rings...
AAY98781     484 ESKLMKAVDGVFGETTCIKGYTADEVGQIFRDKWdkFDRPVAIGLDASRFDQHCSVEALQFEHSFYRAMYPGNKLLSKLL 563 Lisianthus necr...
NP_945114    519 ESKLMKAVDGVFGETTCIKGYTADEVGAIFRAKWdrFDKPVAIGLDASRFDQHCSVEALQYEHSFYRALYPGNKLLGKLL 598 Pelargonium nec...
AAT67237     485 ESKLMKAVDGVFGETTCIKGYTADEVGAIFRAKWdrFDKPVAIGLDASRFDQHCSVEALQYEHSFYRAMYPGNKLLSKLL 564 Tomato bushy st...
YP_002308429 485 ESKLMKAVDGVFGETTCIKGYTADEVGAIFREKWdrFDKPVAIGLDASRFDQHCSVEALQYEHSFYRAMYPGNKLLGKLL 564 Grapevine Alger...
AXY96388     485 ESKLMKAVDGVFGETTCIKGYTADEVGAIFREKWdrFDKPVAIGLDASRFDQHCSVEALQFEHSFYRAMYPGNKLLSKLL 564 Moroccan pepper...
ACX53276     485 ESKLMKAVDGVFGETTCIKGYTADEVGAIFREKWdrFDKPVAIGLDASRFDQHCSVEALQFEHSFYRAMYPGNKLLGKLL 564 Carnation Itali...
Feature 1                                                                     ###                
NP_062897    565 EWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMVHGYMRhlGINEFSLANCGDDCVLIVERRnLKQIQRT 644 Tomato bushy st...
AFM91097     564 DWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMIYGYMRhlGINEFSLANCGDDCVLIVERRnLKQIQGT 643 Lettuce necroti...
AAM49803     565 EWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMIYGYMRhlGINEFSLANCGDDCVLIVERKhLKRIQGT 644 Pear latent virus
NP_613260    565 EWQLHNKGKGYVPDGtITYKKEGCRMSGDINTSLGNYLLMCAMVHGYMRhlGINEFSLANCGDDCVLIIERRnLKRVQGT 644 Cymbidium rings...
AAY98781     564 EWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMIYGYMRhlGINEYSLANCGDDCTLIVERKhLKRIQGT 643 Lisianthus necr...
NP_945114    599 EWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMIHGYMRhlGINEFSLANCGDDCVLILERRnLKQAQKT 678 Pelargonium nec...
AAT67237     565 EWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMVYGYMRhlGINEFSLANCGDDCVLIVERRnLKQIQRT 644 Tomato bushy st...
YP_002308429 565 EWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMVHGYMRhlGINEFSLANCGDDCVLILERRnLKQVQRT 644 Grapevine Alger...
AXY96388     565 EWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMVHGYMRhlGINEFSLANCGDDCVLIVERRnLKQIQGT 644 Moroccan pepper...
ACX53276     565 DWQLHNKGKGYVPDGtITYRKEGCRMSGDINTSLGNYLLMCAMVHGYMRhlGINEFSLANCGDDCVLILERRnLKQVQKT 644 Carnation Itali...
Feature 1                                                                                        
NP_062897    645 LPEYFLNLGYTMKVEQPVFQLEEVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHHGGlALSA 724 Tomato bushy st...
AFM91097     644 LPEYFLNLGYTMKVEKPVFQLEEVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHFGGrALTS 723 Lettuce necroti...
AAM49803     645 LPEYFLNLGYTMKVEPPVFQLEEVEFCQAHPVQFEGGWKMVRNVRTAMSKDVHCVNNIKDLATRKAWSNAQHHGGiALSA 724 Pear latent virus
NP_613260    645 LPGYFLNLGYTMKVESPVFQLEEVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHHGGlALSA 724 Cymbidium rings...
AAY98781     644 LPEYFLNLGYTMKVEPPVFQLEEVEFCQAHPVQFEGGWKMVRNVRTAMSKDVHCVNNIKDLATRKAWSNAQHHGGiALSA 723 Lisianthus necr...
NP_945114    679 LPEYFLNLGYTMKVEQPVFQLEAVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHHGGlALSA 758 Pelargonium nec...
AAT67237     645 LPEYFLNLGYTMKVEAPVFQLEEVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHHGGlALSA 724 Tomato bushy st...
YP_002308429 645 LPEYFLNLGFTMKVEAPVFQLEEVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHHGGlALSA 724 Grapevine Alger...
AXY96388     645 LPEYFLGLGYTMKVEKPVFQLEEVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHFGGrALTS 724 Moroccan pepper...
ACX53276     645 LPEYFLNLGYTMKVEPPVFQLEEVEFCQAHPVQFQGGWKMVRNVRTAMSKDVHCVNNIRDLATRRAWSNAQHHGGlALSA 724 Carnation Itali...
Feature 1                                                                                  
NP_062897    725 GIPVVETFYSRFkLYDVPRKHQRIDTVTNVHKWRGSGGsYVVTPESRASFWAAFGLTGDEQLALEDRLERWEMD 798 Tomato bushy stunt virus
AFM91097     724 GIPVVDKFYSRFvVYDAPKKHQRIDTVTNVHKWRGSGGaYTVTPESRASFWAAFGLTGDEQLALEDRLDRWEMD 797 Lettuce necrotic stun...
AAM49803     725 GIPVVEKFYSRFaLYEMPKRHQRIDTVTNVHKWRGSGGkYSVTPESRASFWQAFGLTGDEQLALEDRLDRWEMD 798 Pear latent virus
NP_613260    725 GIPVVERFYSRFpLYDMPVKHQRIDTVTNVHKWRGSGGnYHVTPESRASFWAAFGLTGDEQVALEDRLDRWEMD 798 Cymbidium ringspot virus
AAY98781     724 GIPVVEKFYSRFaLYEMPKRHQRIDTVTNVHKWRGSGGkYSVTPESRASFWQAFGLTGDEQLALEDRLDRWEMD 797 Lisianthus necrosis v...
NP_945114    759 GIPVVEKFYSRFtLYDVPKKHQRIDTVTNVHKWRGSGGsYVVTPESRASFWAAFGLTGDEQLALEDRLDRWEMD 832 Pelargonium necrotic ...
AAT67237     725 GIPVVERFYSRFtLYDTPRKHQRIDTVTNVHKWRGSGGsYVVTPEARASFWAAFGLTGDEQLALEDRLDRWEMD 798 Tomato bushy stunt virus
YP_002308429 725 GIPVVETFYSRFkLYDTPRKHQRIDTVTNVHKWRGSGGsYVVTPESRASFWAAFGLTGDEQLALEDRLDRWDMD 798 Grapevine Algerian la...
AXY96388     725 GIPVVDKFYSRFvVYDAPKKHQRIDTVTNVHKWRGSGGaYTVTPESRASFWAAFGLTGDEQLALEDRLERWEMD 798 Moroccan pepper virus
ACX53276     725 GIPVVEKFYSRFtLYDVPRKHQRIDTVTNVHKWRGSGGsYVVTPESRASFWAAFGLTGDEQLALEDRLDRWEMD 798 Carnation Italian rin...

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