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Conserved domains on  [gi|20564152|ref|NP_620762|]
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polyprotein [Tomato ringspot virus]

Protein Classification

Nepo_coat and Nepo_coat_C domain-containing protein( domain architecture ID 10508565)

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 pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 1497-1662 1.45e-59

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: 202.23  E-value: 1.45e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1497 PFITLPHIFNRLDIGYWRGPTEIDLTSTPAPNAYRLLFGLSTVISGNMSTLNANQALLRFFQGSNGTLHGRIKKIGTALT 1576
Cdd:pfam03391    1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1577 TCSLLLSLRHKDASLTLETAYQRPHYILA-DGQGAFSLPISTPHAATSFLEDMLRLEIFAIAGPFSPKDNKAKYQFMCYF 1655
Cdd:pfam03391   81 TCSLRVASSWNGATPTLEQLFQRPHVIVEsDGQFEIKIQSPYHRTATRFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                   ....*..
gi 20564152   1656 DHIELVE 1662
Cdd:pfam03391  161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1668-1827 9.56e-59

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: 199.86  E-value: 9.56e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1668 IAGEQQFNWCSFRNFKIDDWKFEWPARLPDILDDKSEVLLRQHPLSLLISSTGFFTGRAIFVFQWGLNTTAGNMKGSFSA 1747
Cdd:pfam03688    1 INYSQRFNWFTLSNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLNTELGKSKGTVKI 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1748 RLAFGKGVEEIEQTSTVQ---PLVGACEARIPVEFKTYTGYTTSGPPGSMEPYIYVRLTQAKLVDRLSVNVILQEGFSFY 1824
Cdd:pfam03688   81 VTLVGDFGTGTDGESTIGdtnGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEEWIRIKSDNAKSISSLRVSIEVLPGFSFY 160


                   ...
gi 20564152   1825 GPS 1827
Cdd:pfam03688  161 GRS 163
Nepo_coat_N pfam03689
Nepovirus coat protein, N-terminal domain; The members of this family are derived from ...
 1331-1421 5.66e-31

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: 117.74  E-value: 5.66e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1331 AYLGKVTCAKDAKGGTLLHTLDIIKECKSQNLLRYKEWQRQGFLHGKLRLRCFIPTNIFCGHSMMCSLDAFGRYDSNVlG 1410
Cdd:pfam03689    2 AFVESITVPKDATAGTVLATLDIRAKIKETNSAVYYEWLRKGYVHPNLKVRIHLPTNIFAGITLGIVFDAYNRIPSDI-T 80

                           90
                   ....*....|.
gi 20564152   1411 ASFPVKLASLL 1421
Cdd:pfam03689   81 TTFPLSLAFSL 91
 
Name Accession Description Interval E-value
Nepo_coat pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 1497-1662 1.45e-59

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: 202.23  E-value: 1.45e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1497 PFITLPHIFNRLDIGYWRGPTEIDLTSTPAPNAYRLLFGLSTVISGNMSTLNANQALLRFFQGSNGTLHGRIKKIGTALT 1576
Cdd:pfam03391    1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1577 TCSLLLSLRHKDASLTLETAYQRPHYILA-DGQGAFSLPISTPHAATSFLEDMLRLEIFAIAGPFSPKDNKAKYQFMCYF 1655
Cdd:pfam03391   81 TCSLRVASSWNGATPTLEQLFQRPHVIVEsDGQFEIKIQSPYHRTATRFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                   ....*..
gi 20564152   1656 DHIELVE 1662
Cdd:pfam03391  161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1668-1827 9.56e-59

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: 199.86  E-value: 9.56e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1668 IAGEQQFNWCSFRNFKIDDWKFEWPARLPDILDDKSEVLLRQHPLSLLISSTGFFTGRAIFVFQWGLNTTAGNMKGSFSA 1747
Cdd:pfam03688    1 INYSQRFNWFTLSNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLNTELGKSKGTVKI 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1748 RLAFGKGVEEIEQTSTVQ---PLVGACEARIPVEFKTYTGYTTSGPPGSMEPYIYVRLTQAKLVDRLSVNVILQEGFSFY 1824
Cdd:pfam03688   81 VTLVGDFGTGTDGESTIGdtnGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEEWIRIKSDNAKSISSLRVSIEVLPGFSFY 160


                   ...
gi 20564152   1825 GPS 1827
Cdd:pfam03688  161 GRS 163
Nepo_coat_N pfam03689
Nepovirus coat protein, N-terminal domain; The members of this family are derived from ...
 1331-1421 5.66e-31

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: 117.74  E-value: 5.66e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1331 AYLGKVTCAKDAKGGTLLHTLDIIKECKSQNLLRYKEWQRQGFLHGKLRLRCFIPTNIFCGHSMMCSLDAFGRYDSNVlG 1410
Cdd:pfam03689    2 AFVESITVPKDATAGTVLATLDIRAKIKETNSAVYYEWLRKGYVHPNLKVRIHLPTNIFAGITLGIVFDAYNRIPSDI-T 80

                           90
                   ....*....|.
gi 20564152   1411 ASFPVKLASLL 1421
Cdd:pfam03689   81 TTFPLSLAFSL 91
 
Name Accession Description Interval E-value
Nepo_coat pfam03391
Nepovirus coat protein, central domain; The members of this family are derived from ...
 1497-1662 1.45e-59

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: 202.23  E-value: 1.45e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1497 PFITLPHIFNRLDIGYWRGPTEIDLTSTPAPNAYRLLFGLSTVISGNMSTLNANQALLRFFQGSNGTLHGRIKKIGTALT 1576
Cdd:pfam03391    1 PTLTYPIKFGDLSLLFLRLPPKFIALGGTTALKSPLLLAGQTVSHGGRIVYSFNAALLSHFLGWGGTIHGSVHSTSSAFV 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1577 TCSLLLSLRHKDASLTLETAYQRPHYILA-DGQGAFSLPISTPHAATSFLEDMLRLEIFAIAGPFSPKDNKAKYQFMCYF 1655
Cdd:pfam03391   81 TCSLRVASSWNGATPTLEQLFQRPHVIVEsDGQFEIKIQSPYHRTATRFGDDGSRFYISSLSGPIAPKDMEAKYQFMIHI 160


                   ....*..
gi 20564152   1656 DHIELVE 1662
Cdd:pfam03391  161 EGIVAVP 167
Nepo_coat_C pfam03688
Nepovirus coat protein, C-terminal domain; The members of this family are derived from ...
 1668-1827 9.56e-59

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: 199.86  E-value: 9.56e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1668 IAGEQQFNWCSFRNFKIDDWKFEWPARLPDILDDKSEVLLRQHPLSLLISSTGFFTGRAIFVFQWGLNTTAGNMKGSFSA 1747
Cdd:pfam03688    1 INYSQRFNWFTLSNFTVDALTFKIPSRISDITSKDATVTNYVNPFALLIASTGMHRGSVTLHFSWSLNTELGKSKGTVKI 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1748 RLAFGKGVEEIEQTSTVQ---PLVGACEARIPVEFKTYTGYTTSGPPGSMEPYIYVRLTQAKLVDRLSVNVILQEGFSFY 1824
Cdd:pfam03688   81 VTLVGDFGTGTDGESTIGdtnGLIQAGSFSIPLEFGDFAGPTTSGGLGLEEEWIRIKSDNAKSISSLRVSIEVLPGFSFY 160


                   ...
gi 20564152   1825 GPS 1827
Cdd:pfam03688  161 GRS 163
Nepo_coat_N pfam03689
Nepovirus coat protein, N-terminal domain; The members of this family are derived from ...
 1331-1421 5.66e-31

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: 117.74  E-value: 5.66e-31
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20564152   1331 AYLGKVTCAKDAKGGTLLHTLDIIKECKSQNLLRYKEWQRQGFLHGKLRLRCFIPTNIFCGHSMMCSLDAFGRYDSNVlG 1410
Cdd:pfam03689    2 AFVESITVPKDATAGTVLATLDIRAKIKETNSAVYYEWLRKGYVHPNLKVRIHLPTNIFAGITLGIVFDAYNRIPSDI-T 80

                           90
                   ....*....|.
gi 20564152   1411 ASFPVKLASLL 1421
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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