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Conserved domains on  [gi|1485549015|emb|SCN13019|]
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polyprotein [Artichoke Italian latent virus]

Protein Classification

Nepo_coat and Nepo_coat_C domain-containing protein( domain architecture ID 10263765)

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_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1175-1339 1.89e-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: 1.89e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1175 INYKQRFGWFMISpsDTTTMELDFKIPSRIGNINVKNTKCVNFTNAFAIMCAATGMHWGRCVLHFTWSWhrNTEAGKMKG 1254
Cdd:pfam03688    1 INYSQRFNWFTLS--NFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSL--NTELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1255 DFAIQT---GMGNSAATHHLGDTRVFSIYDNAYSVPFEFGSFAGPVISGGTPNEAEnWIRVYSTSWQWIHALTVSIEVLP 1331
Cdd:pfam03688   77 TVKIVTlvgDFGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 1485549015 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 9.22e-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: 9.22e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1008 LTYPVESTHLADLDLLLAPQQLAIGTTATTNFPLSFAEKSVTSTKRETYSYAAGLLSHFLGIGGKLRFAVHSTSSCFVTC 1087
Cdd:pfam03391    3 LTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFVTC 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1088 KLRVFLW--GTQPTTVQTAQIPHVDIDGAGTGELLIQSAFYTTAN-FGDSGARFWIMPLSAPAAPQTVETKFEFYIRILG 1164
Cdd:pfam03391   83 SLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHIEG 162


                   ....*
gi 1485549015 1165 VDVVP 1169
Cdd:pfam03391  163 IVAVP 167
 
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 1.89e-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: 1.89e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1175 INYKQRFGWFMISpsDTTTMELDFKIPSRIGNINVKNTKCVNFTNAFAIMCAATGMHWGRCVLHFTWSWhrNTEAGKMKG 1254
Cdd:pfam03688    1 INYSQRFNWFTLS--NFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSL--NTELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1255 DFAIQT---GMGNSAATHHLGDTRVFSIYDNAYSVPFEFGSFAGPVISGGTPNEAEnWIRVYSTSWQWIHALTVSIEVLP 1331
Cdd:pfam03688   77 TVKIVTlvgDFGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 1485549015 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 9.22e-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: 9.22e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1008 LTYPVESTHLADLDLLLAPQQLAIGTTATTNFPLSFAEKSVTSTKRETYSYAAGLLSHFLGIGGKLRFAVHSTSSCFVTC 1087
Cdd:pfam03391    3 LTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFVTC 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1088 KLRVFLW--GTQPTTVQTAQIPHVDIDGAGTGELLIQSAFYTTAN-FGDSGARFWIMPLSAPAAPQTVETKFEFYIRILG 1164
Cdd:pfam03391   83 SLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHIEG 162


                   ....*
gi 1485549015 1165 VDVVP 1169
Cdd:pfam03391  163 IVAVP 167
 
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 1.89e-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: 1.89e-63
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1175 INYKQRFGWFMISpsDTTTMELDFKIPSRIGNINVKNTKCVNFTNAFAIMCAATGMHWGRCVLHFTWSWhrNTEAGKMKG 1254
Cdd:pfam03688    1 INYSQRFNWFTLS--NFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSL--NTELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1255 DFAIQT---GMGNSAATHHLGDTRVFSIYDNAYSVPFEFGSFAGPVISGGTPNEAEnWIRVYSTSWQWIHALTVSIEVLP 1331
Cdd:pfam03688   77 TVKIVTlvgDFGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 1485549015 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 9.22e-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: 9.22e-51
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1008 LTYPVESTHLADLDLLLAPQQLAIGTTATTNFPLSFAEKSVTSTKRETYSYAAGLLSHFLGIGGKLRFAVHSTSSCFVTC 1087
Cdd:pfam03391    3 LTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFVTC 82

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1485549015 1088 KLRVFLW--GTQPTTVQTAQIPHVDIDGAGTGELLIQSAFYTTAN-FGDSGARFWIMPLSAPAAPQTVETKFEFYIRILG 1164
Cdd:pfam03391   83 SLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHIEG 162


                   ....*
gi 1485549015 1165 VDVVP 1169
Cdd:pfam03391  163 IVAVP 167
 
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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