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Conserved domains on  [gi|1485549017|emb|SCN13020|]
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polyprotein [Artichoke Italian latent virus]

Protein Classification

Nepo_coat_N and Nepo_coat_C domain-containing protein( domain architecture ID 10508561)

protein containing domains Nepo_coat_N, Nepo_coat, and Nepo_coat_C

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1175-1339 1.75e-63

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: 212.96  E-value: 1.75e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1175 INYKQRFGWFMVSpsDTTTFELDFKIPSRIGNISVKNTKCVNFTNAFAIMCAATGMHWGRCILHFTWSWHrsTEAGKMKG 1254
Cdd:pfam03688    1 INYSQRFNWFTLS--NFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN--TELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1255 DFAIQT---GMGNNATTHHLGDTRVFSVYDNAYSIPFEFGSFAGPVISGGTPNEAEnWVRVYSTSWQWIHAVTVSIEVLP 1331
Cdd:pfam03688   77 TVKIVTlvgDFGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 1485549017 1332 GFRFYGRS 1339
Cdd:pfam03688  156 GFSFYGRS 163
Nepo_coat super family cl04041
Nepovirus coat protein, central domain; The members of this family are derived from ...
 1008-1169 8.61e-51

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.


The actual alignment was detected with superfamily member pfam03391:

Pssm-ID: 397456  Cd Length: 167  Bit Score: 176.80  E-value: 8.61e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1008 LTYPVEPEHLADLDLLLAPQQLAIGTTATTNFPLSLAEKSITPTKRETYSYAAGLLSHFLGIGGKLRFAVHSTSSCFVTC 1087
Cdd:pfam03391    3 LTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFVTC 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1088 KLRVFLW--GTQPTTVQTAQIPHVDIDGTGTGELLIQSAFYTTAN-FGDSGARFWIMPLSAPAAPQTVETKFEFYIRILG 1164
Cdd:pfam03391   83 SLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHIEG 162


                   ....*
gi 1485549017 1165 IDVIP 1169
Cdd:pfam03391  163 IVAVP 167
Nepo_coat_N pfam03689
Nepovirus coat protein, N-terminal domain; The members of this family are derived from ...
 840-930 5.50e-34

Nepovirus coat protein, N-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: 397651  Cd Length: 91  Bit Score: 125.83  E-value: 5.50e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017  840 FAFSQRITYPAAATMGTVIGTLDVFTLITTTNSRVCAEWLEKGYVDRNILMISHLSTSPYLGMAIWYVFDAYGHIPADVT 919
Cdd:pfam03689    1 LAFVESITVPKDATAGTVLATLDIRAKIKETNSAVYYEWLRKGYVHPNLKVRIHLPTNIFAGITLGIVFDAYNRIPSDIT 80

                           90
                   ....*....|.
gi 1485549017  920 TTVELESIRHL 930
Cdd:pfam03689   81 TTFPLSLAFSL 91
 
Name Accession Description Interval E-value
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1175-1339 1.75e-63

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: 212.96  E-value: 1.75e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1175 INYKQRFGWFMVSpsDTTTFELDFKIPSRIGNISVKNTKCVNFTNAFAIMCAATGMHWGRCILHFTWSWHrsTEAGKMKG 1254
Cdd:pfam03688    1 INYSQRFNWFTLS--NFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN--TELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1255 DFAIQT---GMGNNATTHHLGDTRVFSVYDNAYSIPFEFGSFAGPVISGGTPNEAEnWVRVYSTSWQWIHAVTVSIEVLP 1331
Cdd:pfam03688   77 TVKIVTlvgDFGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 1485549017 1332 GFRFYGRS 1339
Cdd:pfam03688  156 GFSFYGRS 163
Nepo_coat pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 1008-1169 8.61e-51

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: 176.80  E-value: 8.61e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1008 LTYPVEPEHLADLDLLLAPQQLAIGTTATTNFPLSLAEKSITPTKRETYSYAAGLLSHFLGIGGKLRFAVHSTSSCFVTC 1087
Cdd:pfam03391    3 LTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFVTC 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1088 KLRVFLW--GTQPTTVQTAQIPHVDIDGTGTGELLIQSAFYTTAN-FGDSGARFWIMPLSAPAAPQTVETKFEFYIRILG 1164
Cdd:pfam03391   83 SLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHIEG 162


                   ....*
gi 1485549017 1165 IDVIP 1169
Cdd:pfam03391  163 IVAVP 167
Nepo_coat_N pfam03689
Nepovirus coat protein, N-terminal domain; The members of this family are derived from ...
 840-930 5.50e-34

Nepovirus coat protein, N-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: 397651  Cd Length: 91  Bit Score: 125.83  E-value: 5.50e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017  840 FAFSQRITYPAAATMGTVIGTLDVFTLITTTNSRVCAEWLEKGYVDRNILMISHLSTSPYLGMAIWYVFDAYGHIPADVT 919
Cdd:pfam03689    1 LAFVESITVPKDATAGTVLATLDIRAKIKETNSAVYYEWLRKGYVHPNLKVRIHLPTNIFAGITLGIVFDAYNRIPSDIT 80

                           90
                   ....*....|.
gi 1485549017  920 TTVELESIRHL 930
Cdd:pfam03689   81 TTFPLSLAFSL 91
 
Name Accession Description Interval E-value
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1175-1339 1.75e-63

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: 212.96  E-value: 1.75e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1175 INYKQRFGWFMVSpsDTTTFELDFKIPSRIGNISVKNTKCVNFTNAFAIMCAATGMHWGRCILHFTWSWHrsTEAGKMKG 1254
Cdd:pfam03688    1 INYSQRFNWFTLS--NFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN--TELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1255 DFAIQT---GMGNNATTHHLGDTRVFSVYDNAYSIPFEFGSFAGPVISGGTPNEAEnWVRVYSTSWQWIHAVTVSIEVLP 1331
Cdd:pfam03688   77 TVKIVTlvgDFGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 1485549017 1332 GFRFYGRS 1339
Cdd:pfam03688  156 GFSFYGRS 163
Nepo_coat pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 1008-1169 8.61e-51

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: 176.80  E-value: 8.61e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1008 LTYPVEPEHLADLDLLLAPQQLAIGTTATTNFPLSLAEKSITPTKRETYSYAAGLLSHFLGIGGKLRFAVHSTSSCFVTC 1087
Cdd:pfam03391    3 LTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFVTC 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017 1088 KLRVFLW--GTQPTTVQTAQIPHVDIDGTGTGELLIQSAFYTTAN-FGDSGARFWIMPLSAPAAPQTVETKFEFYIRILG 1164
Cdd:pfam03391   83 SLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHIEG 162


                   ....*
gi 1485549017 1165 IDVIP 1169
Cdd:pfam03391  163 IVAVP 167
Nepo_coat_N pfam03689
Nepovirus coat protein, N-terminal domain; The members of this family are derived from ...
 840-930 5.50e-34

Nepovirus coat protein, N-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: 397651  Cd Length: 91  Bit Score: 125.83  E-value: 5.50e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549017  840 FAFSQRITYPAAATMGTVIGTLDVFTLITTTNSRVCAEWLEKGYVDRNILMISHLSTSPYLGMAIWYVFDAYGHIPADVT 919
Cdd:pfam03689    1 LAFVESITVPKDATAGTVLATLDIRAKIKETNSAVYYEWLRKGYVHPNLKVRIHLPTNIFAGITLGIVFDAYNRIPSDIT 80

                           90
                   ....*....|.
gi 1485549017  920 TTVELESIRHL 930
Cdd:pfam03689   81 TTFPLSLAFSL 91
 
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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