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Conserved domains on  [gi|25014032|ref|NP_733980|]
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capsid protein [Beet ringspot virus]

Protein Classification

Nepo_coat and Nepo_coat_C domain-containing protein( domain architecture ID 10506154)

Nepo_coat and Nepo_coat_C domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nepo_coat pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 170-333 3.70e-69

Nepovirus coat protein, central domain; The members of this family are derived from nepoviruses. Together with comoviruses and picornaviruses, nepoviruses are classified in the picornavirus superfamily of plus strand single-stranded RNA viruses. This family aligns several nepovirus coat protein sequences. In several cases, this is found at the C-terminus of the RNA2-encoded viral polyprotein. The coat protein consists of three trapezoid-shaped beta-barrel domains, and forms a pseudo T = 3 icosahedral capsid structure.


:

Pssm-ID: 397456  Cd Length: 167  Bit Score: 219.17  E-value: 3.70e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   170 QPLSYPIEARHLTDLNLMLAPKQIAVGTYAMITFPVSLAAKLQSTSGRTAYSYAAGLLSHFLGVGGTIHFVVRTTSSAFV 249
Cdd:pfam03391   1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   250 TSKLRIALW--GTVPETDQLAQMPHVDVEVNVDASLQIQSPFFSTAN-FGNSGSAFYVSTLCAPMAPETVETGSEYYIQI 326
Cdd:pfam03391  81 TCSLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                  ....*..
gi 25014032   327 KGIEANP 333
Cdd:pfam03391 161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 339-501 2.89e-65

Nepovirus coat protein, C-terminal domain; The members of this family are derived from nepoviruses. Together with comoviruses and picornaviruses, nepoviruses are classified in the picornavirus superfamily of plus strand single-stranded RNA viruses. This family aligns several nepovirus coat protein sequences. In several cases, this is found at the C-terminus of the RNA2-encoded viral polyprotein. The coat protein consists of three trapezoid-shaped beta-barrel domains, and forms a pseudo T = 3 icosahedral capsid structure.


:

Pssm-ID: 397650  Cd Length: 163  Bit Score: 208.72  E-value: 2.89e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   339 INYKQRFAWCLLeclDNSKASPIKVKIPSRIGNLSSKHVKVTNFVNALAILCATTGMHHGNCTIHFSWLWHpAELGKQLG 418
Cdd:pfam03688   1 INYSQRFNWFTL---SNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN-TELGKSKG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   419 RLKFVQ-----GMGINNEHIGDTMCYNSLSNTHSVPFQFGSFAGPITSGGKADEAEnWIEIQSPDFSWVASLHVSIEVHE 493
Cdd:pfam03688  77 TVKIVTlvgdfGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                  ....*...
gi 25014032   494 GFKFYGRS 501
Cdd:pfam03688 156 GFSFYGRS 163
 
Name Accession Description Interval E-value
Nepo_coat pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 170-333 3.70e-69

Nepovirus coat protein, central domain; The members of this family are derived from nepoviruses. Together with comoviruses and picornaviruses, nepoviruses are classified in the picornavirus superfamily of plus strand single-stranded RNA viruses. This family aligns several nepovirus coat protein sequences. In several cases, this is found at the C-terminus of the RNA2-encoded viral polyprotein. The coat protein consists of three trapezoid-shaped beta-barrel domains, and forms a pseudo T = 3 icosahedral capsid structure.


Pssm-ID: 397456  Cd Length: 167  Bit Score: 219.17  E-value: 3.70e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   170 QPLSYPIEARHLTDLNLMLAPKQIAVGTYAMITFPVSLAAKLQSTSGRTAYSYAAGLLSHFLGVGGTIHFVVRTTSSAFV 249
Cdd:pfam03391   1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   250 TSKLRIALW--GTVPETDQLAQMPHVDVEVNVDASLQIQSPFFSTAN-FGNSGSAFYVSTLCAPMAPETVETGSEYYIQI 326
Cdd:pfam03391  81 TCSLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                  ....*..
gi 25014032   327 KGIEANP 333
Cdd:pfam03391 161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 339-501 2.89e-65

Nepovirus coat protein, C-terminal domain; The members of this family are derived from nepoviruses. Together with comoviruses and picornaviruses, nepoviruses are classified in the picornavirus superfamily of plus strand single-stranded RNA viruses. This family aligns several nepovirus coat protein sequences. In several cases, this is found at the C-terminus of the RNA2-encoded viral polyprotein. The coat protein consists of three trapezoid-shaped beta-barrel domains, and forms a pseudo T = 3 icosahedral capsid structure.


Pssm-ID: 397650  Cd Length: 163  Bit Score: 208.72  E-value: 2.89e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   339 INYKQRFAWCLLeclDNSKASPIKVKIPSRIGNLSSKHVKVTNFVNALAILCATTGMHHGNCTIHFSWLWHpAELGKQLG 418
Cdd:pfam03688   1 INYSQRFNWFTL---SNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN-TELGKSKG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   419 RLKFVQ-----GMGINNEHIGDTMCYNSLSNTHSVPFQFGSFAGPITSGGKADEAEnWIEIQSPDFSWVASLHVSIEVHE 493
Cdd:pfam03688  77 TVKIVTlvgdfGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                  ....*...
gi 25014032   494 GFKFYGRS 501
Cdd:pfam03688 156 GFSFYGRS 163
 
Name Accession Description Interval E-value
Nepo_coat pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 170-333 3.70e-69

Nepovirus coat protein, central domain; The members of this family are derived from nepoviruses. Together with comoviruses and picornaviruses, nepoviruses are classified in the picornavirus superfamily of plus strand single-stranded RNA viruses. This family aligns several nepovirus coat protein sequences. In several cases, this is found at the C-terminus of the RNA2-encoded viral polyprotein. The coat protein consists of three trapezoid-shaped beta-barrel domains, and forms a pseudo T = 3 icosahedral capsid structure.


Pssm-ID: 397456  Cd Length: 167  Bit Score: 219.17  E-value: 3.70e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   170 QPLSYPIEARHLTDLNLMLAPKQIAVGTYAMITFPVSLAAKLQSTSGRTAYSYAAGLLSHFLGVGGTIHFVVRTTSSAFV 249
Cdd:pfam03391   1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   250 TSKLRIALW--GTVPETDQLAQMPHVDVEVNVDASLQIQSPFFSTAN-FGNSGSAFYVSTLCAPMAPETVETGSEYYIQI 326
Cdd:pfam03391  81 TCSLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                  ....*..
gi 25014032   327 KGIEANP 333
Cdd:pfam03391 161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 339-501 2.89e-65

Nepovirus coat protein, C-terminal domain; The members of this family are derived from nepoviruses. Together with comoviruses and picornaviruses, nepoviruses are classified in the picornavirus superfamily of plus strand single-stranded RNA viruses. This family aligns several nepovirus coat protein sequences. In several cases, this is found at the C-terminus of the RNA2-encoded viral polyprotein. The coat protein consists of three trapezoid-shaped beta-barrel domains, and forms a pseudo T = 3 icosahedral capsid structure.


Pssm-ID: 397650  Cd Length: 163  Bit Score: 208.72  E-value: 2.89e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   339 INYKQRFAWCLLeclDNSKASPIKVKIPSRIGNLSSKHVKVTNFVNALAILCATTGMHHGNCTIHFSWLWHpAELGKQLG 418
Cdd:pfam03688   1 INYSQRFNWFTL---SNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN-TELGKSKG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 25014032   419 RLKFVQ-----GMGINNEHIGDTMCYNSLSNTHSVPFQFGSFAGPITSGGKADEAEnWIEIQSPDFSWVASLHVSIEVHE 493
Cdd:pfam03688  77 TVKIVTlvgdfGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                  ....*...
gi 25014032   494 GFKFYGRS 501
Cdd:pfam03688 156 GFSFYGRS 163
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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