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Conserved domains on  [gi|130403|sp|P14547|]
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RecName: Full=RNA2 polyprotein; AltName: Full=P2; Contains: RecName: Full=Protein 2A; Short=P2A; Contains: RecName: Full=Movement protein; AltName: Full=2B-MP; Contains: RecName: Full=Coat protein; AltName: Full=2C-CP

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 ...
 1007-1170 4.14e-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: 229.19  E-value: 4.14e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1007 QPLSYPIEARHLTDLNLMLAPKQIAVGTYAMITFPVSLAAKLQSTSGRTAYSYAAGLLSHFLGVGGTIHFVVRTTSSAFV 1086
Cdd:pfam03391    1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1087 TSKLRIALW--GTVPETDQLAQMPHVDVEVNVDASLQIQSPFFSTAN-FGNSGSAFYVSTLCAPMAPETVETGSEYYIQI 1163
Cdd:pfam03391   81 TCSLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                   ....*..
gi 130403     1164 KGIEANP 1170
Cdd:pfam03391  161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1176-1338 3.26e-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: 217.97  E-value: 3.26e-65
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1176 INYKQRFAWCLLeclDNSKASPIKVKIPSRIGNLSSKHVKVTNFVNALAILCATTGMHHGNCTIHFSWLWHpAELGKQLG 1255
Cdd:pfam03688    1 INYSQRFNWFTL---SNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN-TELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1256 RLKFVQ-----GMGINNEHIGDTMCYNSLSNTHSVPFQFGSFAGPITSGGKADEAEnWIEIQSPDFSWVASLHVSIEVHE 1330
Cdd:pfam03688   77 TVKIVTlvgdfGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 130403     1331 GFKFYGRS 1338
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 ...
 1007-1170 4.14e-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: 229.19  E-value: 4.14e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1007 QPLSYPIEARHLTDLNLMLAPKQIAVGTYAMITFPVSLAAKLQSTSGRTAYSYAAGLLSHFLGVGGTIHFVVRTTSSAFV 1086
Cdd:pfam03391    1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1087 TSKLRIALW--GTVPETDQLAQMPHVDVEVNVDASLQIQSPFFSTAN-FGNSGSAFYVSTLCAPMAPETVETGSEYYIQI 1163
Cdd:pfam03391   81 TCSLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                   ....*..
gi 130403     1164 KGIEANP 1170
Cdd:pfam03391  161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1176-1338 3.26e-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: 217.97  E-value: 3.26e-65
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1176 INYKQRFAWCLLeclDNSKASPIKVKIPSRIGNLSSKHVKVTNFVNALAILCATTGMHHGNCTIHFSWLWHpAELGKQLG 1255
Cdd:pfam03688    1 INYSQRFNWFTL---SNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN-TELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1256 RLKFVQ-----GMGINNEHIGDTMCYNSLSNTHSVPFQFGSFAGPITSGGKADEAEnWIEIQSPDFSWVASLHVSIEVHE 1330
Cdd:pfam03688   77 TVKIVTlvgdfGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 130403     1331 GFKFYGRS 1338
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 ...
 1007-1170 4.14e-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: 229.19  E-value: 4.14e-69
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1007 QPLSYPIEARHLTDLNLMLAPKQIAVGTYAMITFPVSLAAKLQSTSGRTAYSYAAGLLSHFLGVGGTIHFVVRTTSSAFV 1086
Cdd:pfam03391    1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1087 TSKLRIALW--GTVPETDQLAQMPHVDVEVNVDASLQIQSPFFSTAN-FGNSGSAFYVSTLCAPMAPETVETGSEYYIQI 1163
Cdd:pfam03391   81 TCSLRVASSwnGATPTLEQLFQRPHVIVESDGQFEIKIQSPYHRTATrFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                   ....*..
gi 130403     1164 KGIEANP 1170
Cdd:pfam03391  161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1176-1338 3.26e-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: 217.97  E-value: 3.26e-65
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1176 INYKQRFAWCLLeclDNSKASPIKVKIPSRIGNLSSKHVKVTNFVNALAILCATTGMHHGNCTIHFSWLWHpAELGKQLG 1255
Cdd:pfam03688    1 INYSQRFNWFTL---SNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLN-TELGKSKG 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 130403     1256 RLKFVQ-----GMGINNEHIGDTMCYNSLSNTHSVPFQFGSFAGPITSGGKADEAEnWIEIQSPDFSWVASLHVSIEVHE 1330
Cdd:pfam03688   77 TVKIVTlvgdfGTGTDGESTIGDTNGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEE-WIRIKSDNAKSISSLRVSIEVLP 155


                   ....*...
gi 130403     1331 GFKFYGRS 1338
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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