Conserved Protein Domain Family
ps-ssRNAv_Hepelivirales_RdRp

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cd23209: ps-ssRNAv_Hepelivirales_RdRp 
catalytic core domain of RNA-dependent RNA polymerase (RdRp) in the order Hepelivirales of positive-sense single-stranded RNA [(+)ssRNA] viruses
This group contains the catalytic core domain of RdRp of RNA viruses belonging to the order Hepelivirales, class Alsuviricetes. This Hepelivirales order consists of four families: Alphatetraviridae, Benyviridae, Hepeviridae, and Matonaviridae. 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: 438059
Aligned: 5 rows
Threshold Bit Score: 256.647
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                                                                                         
Q67724       1046 RDIDFLMKTQQKvspk-pinTGKVGQGIAAHSKsLNFVLAAWIRILeEILRTGs---rTVRYSNGlpdeeeamLLEAKIN 1121 Helicoverpa a...
Q9J6K9       1793 LKCVDAALGPRDtedc-haaQGKAGLEIRAWAKeWVQVMSPHFRAIqKIIMRAlr--pQFLVAAGht-----ePEVDAWW 1864 Rubella virus...
QAR21011     1743 RVYRFQLKDIEKpvkeptvdMAKAGQGILAWSKeAHVKFMIAFRVLnDMLLKSvk--eNVVYDNGms----ekEFTDKIN 1816 Rice stripe n...
BAM68889     1405 SRITFFQKDCNKfttgetiaHGKVGQGISAWSKtFCALFGPWFRAIeKQILALlp--pNIFYGDAfe----dsVFSAAVT 1478 Hepatitis E v...
YP_004464929  173 TKMTFFQKECDKftmdepvqHNKPGQGISAWPKtLCFIYGLFFRKLeKELRQAlkpsiIFSNPYTeeq---laRAVSKCT 249  Cutthroat tro...
Feature 1                        #                                                                
Q67724       1122 QVPh-----aTFVSADWTEFDTAHNNTSELLFAallerigtpaaavnLFRERCGkrTLRAKGlGSVEVDgLLDSGAAWTP 1196 Helicoverpa a...
Q9J6K9       1865 QAHyt----tNAIEVDFTEFDMNQTLATRDVELeisaall-glpcaeDYRALRAgsYCTLRElGSTETGcERTSGEPATL 1939 Rubella virus...
QAR21011     1817 SAMssvpgvaVNGVIDAAACDSGQGPFTQLVERyiyelmgisdffldWYFSFREhyIMQSRY-VRAHMTyVKTSGEPGTL 1895 Rice stripe n...
BAM68889     1479 GAGs-----sMVFENDFSEFDSTQNNFSLGLECvimeecgmppwlvrLYHLVRSawVLQAPK-ESLKGLwKKHSGEPGTL 1552 Hepatitis E v...
YP_004464929  250 TGTt------VFYENDFSAFDSTQNLVSLGNEFlilvqcgmppalaeVYFNLRLkwTLDARV-ASLRGTsKKHSGEPGTM 322  Cutthroat tro...
Feature 1                                   ###      
Q67724       1197 CRNTIFSAAVMLTLFrg--vKFAAFKGDDSLLCGS 1229 Helicoverpa armigera stunt virus
Q9J6K9       1940 LHNTTVAMCMAMRMVpkgvrWAGIFQGDDMVIFLP 1974 Rubella virus strain Cendehill
QAR21011     1896 LGNTILMGALMNSFLrgdgpFCMAIKGDDGFKRQM 1930 Rice stripe necrosis virus
BAM68889     1553 LWNTVWNMAVIAHCYefrdfKVAAFKGDDSVVLCS 1587 Hepatitis E virus
YP_004464929  323 LFNTIWNMTAVFHTTsftrmTLALFKGDDSLVCCD 357  Cutthroat trout virus

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