6JYT


Conserved Protein Domain Family
CoV_Nsp13-helicase

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cd21718: CoV_Nsp13-helicase 
Click on image for an interactive view with Cn3D
helicase domain of coronavirus non-structural protein 13
This model represents the helicase domain of non-structural protein 13 (Nsp13) from alpha-, beta-, gamma-, and deltacoronavirus, including pathogenic human viruses such as Severe acute respiratory syndrome coronavirus (SARS-CoV), SARS-CoV2 (also called 2019 novel CoV or 2019-nCoV), and Middle East respiratory syndrome-related (MERS) CoV. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. CoV Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.
Statistics
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PSSM-Id: 409652
Aligned: 5 rows
Threshold Bit Score: 644.584
Created: 27-Apr-2020
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 11 residues -Click on image for an interactive view with Cn3D
Feature 1:ATP binding site [chemical binding site]
Evidence:
  • Comment:based on similarity to other helicases of the SF1 family

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                        ######                                        
6JYT_A     253 GLYPTLnisdeFSSNVANYQKvgxQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDALCEKALKYLPIDKC 332  Severe acute res...
P0C6Y3    5121 NLRPNVmvpacFVNNIPLYHLvgkQKRTTVQGPPGSGKSHFAIGLAAYFSNARVVFTACSHAAVDALCEKAFKFLKVDDC 5200 Avian infectious...
AVM87573  3305 GLWSGNvlhhdFYNHVSSYDKisrQRYTTVQGPPGTGKSHFAIGLACYFPGARVVYTACSHAAVNALCEKASKWLPNHLC 3384 Guangdong chines...
ACJ12043  4753 SLIPDTvnasfYVQHFKSYNEialQKVTTVLGPPGTGKSTFAIGLAKYYPNARICYTASSHAAIDALCEKAFKTLPVGQC 4832 Bulbul coronavir...
P0C6Y4    5279 KLHPAFnipeaYSSLVPYYQLigkQKITTIQGPPGSGKSHCVIGLGLYYPGARIVFTACSHAAVDSLCVKASTAYSNDKC 5358 Porcine epidemic...
Feature 1                                                                               #      
6JYT_A     333 SRIIPARARVECFDKFKVNstleQYVFCTVNALPETTADIVVFDEISXATNYDLSVVNARLrakHYVYIGDPAQLPAPRT 412  Severe acute res...
P0C6Y3    5201 TRIVPQRTTIDCFSKFKANdtgkKYIFSTINALPEVSCDILLVDEVSMLTNYELSFINGKInyqYVVYVGDPAQLPAPRT 5280 Avian infectious...
AVM87573  3385 TRVVPLKSNADCYNGFRVNdnnaRYIFSTINSLPECSADLVVVDEVSMCTNFDLSIVNGKVkykHIVYIGDPEQLPAPRV 3464 Guangdong chines...
ACJ12043  4833 SRIVPTRTTVECFQDFVVNnttaQYIFSTINALPDIKCDIVVVDEVSMLTNYELSSVNARLvynHIVYVGDPYQLPSPRT 4912 Bulbul coronavir...
P0C6Y4    5359 SRIIPQRARVECYDGFKSNntsaQYLFSTVNALPECNADIVVVDEVSMCTNYDLSVINQRIsyrHVVYVGDPQQLPAPRV 5438 Porcine epidemic...
Feature 1                                      #                                               
6JYT_A     413 LLtKGTLEPeyFNSVCRLXKTIGPDXFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKx---fYKGVITHDvssa 489  Severe acute res...
P0C6Y3    5281 LL-NGSLSPkdYNVVTNLMVCVKPDIFLAKCYRCPKEIVDTVSTLVYDGKFIANNPESRQCFKvivnnGNSDVGHEsgsa 5359 Avian infectious...
AVM87573  3465 LL-EGSLKPvhYNRVCRLMVGSGPCVFLSDCYRCPKEIVDSVSKLVYDGKLKAINGKSDCCFKt---iLPGIVRYDngsa 3540 Guangdong chines...
ACJ12043  4913 MLtTGQLAPadYNVVTDIMVHTGADVMLDMCYRCPREIVDTVSKLVYDNKLKAAKPNSRQCYKtiinfGSSDIAHEgqsa 4992 Bulbul coronavir...
P0C6Y4    5439 MIsRGTLEPkdYNVVTQRMCALKPDVFLHKCYRCPAEIVRTVSEMVYENQFIPVHPDSKQCFKi---fCKGNVQVDngss 5515 Porcine epidemic...
Feature 1                                                        # #                          #
6JYT_A     490 INRPQIGVVREFltrnpaWRKAVFISPYNSQNAVAskilGLPTQTVDSSQGSEYDYVIFTQTTETAHSCNVNRFNVAITR 569  Severe acute res...
P0C6Y3    5360 YNITQLEFVKDFvcrnkeWREATFISPYNAMNQRAyrmlGLNVQTVDSSQGSEYDYVIFCVTADSQHALNINRFNVALTR 5439 Avian infectious...
AVM87573  3541 VNVVQLEFLKRFldinpdWRDAVFISPYNAMNNRAkrllGLSVQTVDSSQGSEYSKVIFCQTAKTDHALNINRFNVAVTR 3620 Guangdong chines...
ACJ12043  4993 YNEPQLRFALAFrry-krWDNVTFISPYNAMNVKAam-aGFSTQTVDSSQGSEYDYVIFCVTTDSAHALNMSRLNVALTR 5070 Bulbul coronavir...
P0C6Y4    5516 INRRQLDVVRMFlaknprWSKAVFISPYNSQNYVAsrllGLQIQTVDSSQGSEYDYVIYAQTSDTAHASNVNRFNVAITR 5595 Porcine epidemic...
Feature 1                              
6JYT_A     570 AKIGILCIxsd-rdLYDKLQFTSL 592  Severe acute respiratory syndrome-related coronavirus
P0C6Y3    5440 AKRGILVVmrqrdeLYSALKFIEL 5463 Avian infectious bronchitis virus (strain M41)
AVM87573  3621 SKHSLFVImnseneLFNALDFKVL 3644 Guangdong chinese water skink coronavirus
ACJ12043  5071 AKVGILVVfrqandLYNSLQFESI 5094 Bulbul coronavirus HKU11-796
P0C6Y4    5596 AKKGILCImcd-rsLFDLLKFFEL 5618 Porcine epidemic diarrhea virus CV777

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