2GE8,2CA1,2GE7,5EPW,2JW8,2GIB,6G13,2CJR,7C22,6YUN


Conserved Protein Domain Family
CoV_N-CTD

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cd21595: CoV_N-CTD 
Click on image for an interactive view with Cn3D
C-terminal domain of nucleocapsid (N) protein of coronavirus
The coronavirus nucleocapsid (N) protein is a major structural and multifunctional protein. It plays an important role in the virus replication cycle, by forming a complex with the viral RNA. It also interacts with the viral membrane protein during virion assembly and plays a critical role in enhancing the efficiency of virus transcription and assembly. The C-terminal domain of the N protein (N-CTD) is involved in dimerization, and is thus, also called the dimerization domain.
Statistics
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PSSM-Id: 439220
Aligned: 92 rows
Threshold Bit Score: 85.9951
Created: 16-Apr-2020
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
dimer interface
Conserved site includes 45 residues -Click on image for an interactive view with Cn3D
Feature 1:dimer interface [polypeptide binding site]
Evidence:
  • Structure:2GE8; Infectious bronchitis virus nucleocapsid protein C-terminal domain forms a dimer, contacts 4A
  • Structure:2CJR: SARS coronavirus TW1 nucleocapsid protein C-terminal domain forms a dimer, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1         #   #  #     ###    #    #    #  ### ############# # #    ##############       
2GE8_A        18 KVDQVFGPRTkgkeGNFGDDKMNEEGIkDGRVTAMLNlVPSSHACLFGSRVTPKLqp-dGLHLKFEFTTVVPRddpqfDN 96  Infectious bron...
YP_005352885 201 TISAVFGKRSpa-gSNVGSADTEKAGMaDGRIMALARqVPGVQEMLFAGHLSHQFqa-dAVTLTWTYSITIKSdssdyDR 278 Common moorhen ...
YP_002308501 199 TISQVFGHRSrt-gANVGSADTEKSGMaDPRIMALARyVPGVQEMLFAGHVDSQFqv-nDITLTFTYSITVKEnspdyIR 276 Thrush coronavi...
YP_005352858 199 TISQVFGARSrs-gANVGSADTEKTGMaDPRIMALARhAPGVQELLFAGHLDSSFqqegALTLTFTYSITVKPdspdyDR 277 Magpie-robin co...
YP_002308510 199 TISQVFGTRSka-gANVGSADSEKAGMaDSRIMTLARfVPGVQELLFAGHLDSNFqqdgALTLTFTYSITVKQdspdyDR 277 Munia coronavir...
BBC54856     199 TISQVFGSRSrt-gANVGSADTEKLGMaDPRIMALARhVPGVQEMLFGGHVDSTFqa-gALTLTFTYSITVKEgspdyER 276 Quail coronavir...
BBC54826     198 TISQVFGNRSks-gANVGSADTEKSGMaDPRIMALARyVPGVQEMLFAGHLSSQFqa-gDITLNFSYSITVKEgspdyAR 275 Falcon coronavi...
AHB63520     231 SVDGVFGARDi--eKNFGDAEMIKKGMsDPRFTAALIpTPGPQAALFGSHVTLKEkp-dGLEITYKYRTLFPKtderyEE 307 Bottlenose dolp...
YP_005352867 190 TISQVFGKRTpg-gANVGSADTEKAGFtDPRLMCLMRhTPGTQELLLAGHLDHDIqp-eGVYLKFTYTTQVKRdsaeyDR 267 Night heron cor...
ACJ12048     200 TITQVFGPRSpt-gANVGAPDIEKTGMaDPRVMALSRhAPGVQELMFAGHVSSNFqangDITLTFTYSITVKEgtpdyQR 278 Bulbul coronavi...
Feature 1        ##  #   #  
2GE8_A        97 YVKICDQCVDG 107 Infectious bronchitis virus
YP_005352885 279 IKQALDTVVDQ 289 Common moorhen coronavirus HKU21
YP_002308501 277 IKDALSTVVNQ 287 Thrush coronavirus HKU12-600
YP_005352858 278 LKEALSSVVNQ 288 Magpie-robin coronavirus HKU18
YP_002308510 278 LKDALNTVVNQ 288 Munia coronavirus HKU13-3514
BBC54856     277 LKEALNTVVNQ 287 Quail coronavirus UAE-HKU30
BBC54826     276 IKDALNTVVDQ 286 Falcon coronavirus UAE-HKU27
AHB63520     308 VKHAYLSNVPL 318 Bottlenose dolphin coronavirus HKU22
YP_005352867 268 VIAALNNVVNQ 278 Night heron coronavirus HKU19
ACJ12048     279 VKDALNTIVDQ 289 Bulbul coronavirus HKU11-796

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