Conserved Protein Domain Family
ps-ssRNAv_Martellivirales_RdRp

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cd23208: ps-ssRNAv_Martellivirales_RdRp 
catalytic core domain of RNA-dependent RNA polymerase (RdRp) in the order Martellivirales of positive-sense single-stranded RNA [(+)ssRNA] viruses
This group contains the catalytic core domain of RdRp of RNA viruses belonging to the order Martellivirales, class Alsuviricetes. The order Martellivirales consists of seven families: Bromoviridae, Closteroviridae, Endornaviridae, Kitaviridae, Mayoviridae, Togaviridae, and Virgaviridae. 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: 438058
Aligned: 10 rows
Threshold Bit Score: 213.768
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                                                                                         
P05080       1367 SSYMYMIKSDVKPktdltpqfEYSALQTVVYHEKlINSLFGPIFKEINERKLDAmqpHFVFNTRm----TSSDLNDRVKf 1442 Tobacco rattl...
YP_002640501  434 QFYEHMVKSDVKPsvtdtlnvDRPVPATITFHKKqITSQFSPLFTALFERFQRClrsKVVLPVGk---iSSLELEDFSVi 510  Gayfeather mi...
AEQ55300      813 DRYQFLLKSEPKPdltvealsKYPIPQSILCHSKdINAIFCPLIRTIRDRIMEKmdkKYQFFTKvdeegFAEKMNRVFPa 892  Blueberry nec...
QTW98919       44 QKYHHMIKRDVKFaltdaaqsEYTKAATITYHKPeITQIATAIFGQFKTRLLACkkkFLNIPLD-----HDNDLSGYLSt 118  Black mulberr...
YP_009333242 1602 IKYQMMIKAEPKNklelgatqEYFSLQNIVHNYPkITAFWSSIFKELFRRFNSCl--KPQICVLir--kNADEISQFFSt 1677 Beihai charyb...
ARP51762       21 TRYKLMVKADAKPkldstplqQYVTGQNIVYHDRaITAMFSHIFTQAVERLKYVlqsKVMAYHGm----STDDFSREVSe 96   Grapevine lea...
BBJ37194      178 CTYNFMIKNDVKPkmdltpqsEYAALQTVVYPDKiVNALFGPVMKEINERIRYAlkpHVVYNSRm----NAEELNRTVEf 253  Japanese soil...
AAA96974     2186 DRFVMDMKRDVKVtpgtkhteERPKVQVIQAAEPlATAYLCGIHRELVRRLTAVl--LPNIHTLf---dMSAEDFDAIIa 2260 Sindbis virus
YP_009022070 3098 YKVENLMKEQVNDi-------LDQVGRVIVWNNQnINMYACPVINEAKARFKSLl-kPNVIYTDg---mTVADMNKSIGq 3166 Sclerotinia s...
YP_009337423 2376 NSFSYMIKGDVKPqlelsaiqKYPSVQTIVYSDKnINAIFCPVFGVLFERLLNLldeRILVFTGmspheFEKELNARIAg 2455 Hubei virga-l...
Feature 1                      #                                                                  
P05080       1443 lnt-eaayDFVEIDMSKFDKSANRFHLQLQLeIYRLFGldewaafLWEVSHTq---tTVRDIQngMMAHIWy---QQKSG 1515 Tobacco rattl...
YP_002640501  511 g------kHCLEIDLSKFDKSQGELHLMIQEqILNRLGcpahvskWWCDFHRq---sYIKDKRagVGMALSf---QRRTG 578  Gayfeather mi...
AEQ55300      893 dsa--kfyYSYEFDMSKYDKSQGQLVLDFECaLMRRLGvpeyivgCWRVAHTr---tRARDLTnkISFETVf---QRKSG 964  Blueberry nec...
QTW98919      119 yhlgsennTFTEIDFSKFDKSQGELHQLIQDyILIRFGcdpefvaLWSTAHRs---sSIYDQNvgIQFKTDf---QRRTG 192  Black mulberr...
YP_009333242 1678 wlepnspyKKLEVDFSKYDKSQQDFCLATELyVMRKLGlsdnlieAWKFFHTl---sTGTDFKagIKAKFLy---QRKTG 1751 Beihai charyb...
ARP51762       97 rlgdisgyYVYELDISKYDKSQGACMKDVERlILIGLGvae--svVDAFFCGeydsvVTMGKNelVLSVGA----QRRSG 170  Grapevine lea...
BBJ37194      254 ldp-eeeyQSFEIDFSKFDKSKTSLHIRTVIeFYKLFGleemlafLWEKSQCq---tTVKDRLngITAYLLy---QQKSG 326  Japanese soil...
AAA96974     2261 ehf-kqgdPVLETDIASFDKSQDDAMALTGLmILEDLGvdqplldLIECAFGei--sSTHLPTgtRFKFGA----MMKSG 2333 Sindbis virus
YP_009022070 3167 yk----skWLLEMDLSKQDRQTDAQILIYEWkLMGMLGvp---dvLIEFMTSf---iPTFRINg-TSHETAklpaIHFSG 3235 Sclerotinia s...
YP_009337423 2456 ldl--sevVTVEEDMSKYDKAQGRALRQFEDlLWDALGmdpdllrIWTDSHVr---sHVRDRRngIGFDTEy---QRKSG 2527 Hubei virga-l...
Feature 1                                           ###      
P05080       1516 DADTYNANSDRTLCALLSELple---kaVMVTYGGDDSLIAFP 1555 Tobacco rattle virus-SYM
YP_002640501  579 DAFTYFGNTLVTMALFCWCYdte---qfDRMLFSGDDSLAFSS 618  Gayfeather mild mottle virus
AEQ55300      965 DASTYFGNTVILMIALLDVLpde---dvVFGAFSGDDSLIFST 1004 Blueberry necrotic ring blotch virus
QTW98919      193 DAFTFMGNSLVTAAMLAYVIskedekkiRYILIGGDDSLICSY 235  Black mulberry idaeovirus
YP_009333242 1752 DSFTCLGNTIISMSALAACFdls---klECGAFVGDDSLLMFK 1791 Beihai charybdis crab virus 1
ARP51762      171 GANTWLGNTLVLMTLLAISLkgf---epDLVVVCGDDSLIFSK 210  Grapevine leafroll-associated virus 1
BBJ37194      327 NCDTYGSNTWSAALALLETMple---kaKFMIFGGDDSLILFP 366  Japanese soil-borne wheat mosaic virus
AAA96974     2334 MFLTLFVNTVLNVVIASRVLeerl-ktsRCAAFIGDDNIIHGV 2375 Sindbis virus
YP_009022070 3236 GAMTSMGNEIRNLLLLSDCIgn----nyVAIYTLGDDSLVLMN 3274 Sclerotinia sclerotiorum betaendornavirus 1
YP_009337423 2528 DATTFAGNTLVILAVLLGVYdid---diALIMVAGDDSYIFFK 2567 Hubei virga-like virus 1

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