2GE8,2CA1,2GE7,6G13,2CJR,5EPW


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: 394954
View PSSM: cd21595
Aligned: 88 rows
Threshold Bit Score: 97.1801
Threshold Setting Gi: 1359122860
Created: 16-Apr-2020
Updated: 29-Apr-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
dimer interface
Conserved site includes 51 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
    View structure with Cn3D
  • Structure:2CJR: SARS coronavirus TW1 nucleocapsid protein C-terminal domain forms a dimer, contacts at 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1        # #####     #   #  #     ###    #    #    #  ### ############# # #    ##########
2GE8_A         7 RYCKRTIPPgyKVDQVFGPRTkgkeGNFGDDKMNEEGIkDGRVTAMLNlVPSSHACLFGSRVTPKLqp-dGLHLKFEFTT 85  Infectious bron...
AVM87578     227 SYFKRSVTRgsRIVSLFGKRKpd-gPNFGTGSLLEKGSdDPDFVPAMYpVPSQHAMLYGGKVTMREgq-nGLIIGYYFES 304 Guangdong chine...
YP_005352875 185 AIPKRVLLKgkTISGTFGKRSpa-kANVGSPDTEKTGLgDPRLMALMRfVPGTQELLFAGHLKHKMqp-eGVQLTFTYDI 262 Wigeon coronavi...
YP_005352867 179 QIPKRTLTKgkTISQVFGKRTpg-gANVGSADTEKAGFtDPRLMCLMRhTPGTQELLLAGHLDHDIqp-eGVYLKFTYTT 256 Night heron cor...
YP_005352885 190 AIPKRTLQKgkTISAVFGKRSpa-gSNVGSADTEKAGMaDGRIMALARqVPGVQEMLFAGHLSHQFqa-dAVTLTWTYSI 267 Common moorhen ...
BBC54856     188 QAPKRTLPKgkTISQVFGSRSrt-gANVGSADTEKLGMaDPRIMALARhVPGVQEMLFGGHVDSTFqa-gALTLTFTYSI 265 Quail coronavir...
BBC54826     187 QAPKRTLQKgkTISQVFGNRSks-gANVGSADTEKSGMaDPRIMALARyVPGVQEMLFAGHLSSQFqa-gDITLNFSYSI 264 Falcon coronavi...
YP_002308510 188 QAPKRTLLKgkTISQVFGTRSka-gANVGSADSEKAGMaDSRIMTLARfVPGVQELLFAGHLDSNFqqdgALTLTFTYSI 266 Munia coronavir...
YP_005352858 188 QAPKRTLLKgkTISQVFGARSrs-gANVGSADTEKTGMaDPRIMALARhAPGVQELLFAGHLDSSFqqegALTLTFTYSI 266 Magpie-robin co...
YP_002308501 188 QAPKRTLQKgkTISQVFGHRSrt-gANVGSADTEKSGMaDPRIMALARyVPGVQEMLFAGHVDSQFqv-nDITLTFTYSI 265 Thrush coronavi...
Feature 1        ####       ##  #   #  
2GE8_A        86 VVPRddpqfDNYVKICDQCVDG 107 Infectious bronchitis virus
AVM87578     305 WFYNthpqfNKVKEVYMRNLGM 326 Guangdong chinese water skink coronavirus
YP_005352875 263 TVKRdnkdfDRIVEALNSVVDM 284 Wigeon coronavirus HKU20
YP_005352867 257 QVKRdsaeyDRVIAALNNVVNQ 278 Night heron coronavirus HKU19
YP_005352885 268 TIKSdssdyDRIKQALDTVVDQ 289 Common moorhen coronavirus HKU21
BBC54856     266 TVKEgspdyERLKEALNTVVNQ 287 Quail coronavirus UAE-HKU30
BBC54826     265 TVKEgspdyARIKDALNTVVDQ 286 Falcon coronavirus UAE-HKU27
YP_002308510 267 TVKQdspdyDRLKDALNTVVNQ 288 Munia coronavirus HKU13-3514
YP_005352858 267 TVKPdspdyDRLKEALSSVVNQ 288 Magpie-robin coronavirus HKU18
YP_002308501 266 TVKEnspdyIRIKDALSTVVNQ 287 Thrush coronavirus HKU12-600

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