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Conserved domains on  [gi|77118930|ref|YP_337919|]
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24 kDa protein [Grapevine leafroll-associated virus 2]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RSS_P20 pfam11757
Suppressor of RNA silencing P21-like N-terminal domain; This domain can be found at the ...
 1-89 3.01e-20

Suppressor of RNA silencing P21-like N-terminal domain; This domain can be found at the N-terminal region of is a large family of putative suppressors of RNA silencing proteins, P20-P25, from ssRNA positive-strand viruses such as Closterovirus, Potyvirus and Cucumovirus families. RNA silencing is one of the major mechanisms of defence against viruses, and, in response, some viruses have evolved or acquired functions for suppression of RNA silencing. These counter-defencive viral proteins with RNA silencing suppressor (RSS) activity were originally discovered in the members of plant virus genera Potyvirus and Cucumovirus. Each of the conserved blocks of amino acids found in P21-like proteins corresponds to a computer-predicted alpha-helix, with the most C-terminal element being 42 residues long. This suggests conservation of the predominantly alpha-helical secondary structure in the P21-like proteins. C-terminal domain entry found under pfam11479.


:

Pssm-ID: 403072  Cd Length: 94  Bit Score: 81.27  E-value: 3.01e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77118930     1 MRVIVSPYEAEDILKKSTDILRDI---DSGVL--NTKECIKVFSTITRDLHCAKASYQWGVDTGLYQRDCAEKRLIDTVE 75
Cdd:pfam11757   1 MKLYFSVYEYISLLSRVTSLLRRVrelSTNSTlsNLKECINDFNELTALLHSLKSDENDEVREGSYSMKSNKLRILSTIE 80

                          90
                  ....*....|....
gi 77118930    76 SNIRLAQPLVRQKV 89
Cdd:pfam11757  81 ENLREIRDLLRKRV 94
Suppressor_P21 super family cl13001
RNA silencing suppressor P21 C-terminal domain; P21 is produced by Beet yellows virus to ...
 93-170 2.05e-05

RNA silencing suppressor P21 C-terminal domain; P21 is produced by Beet yellows virus to suppress the antiviral silencing response mounted by the host. P21 acts by binding directly to siRNA which is a mediator in the process. P21 has an octameric ring structure with a large central cavity. This is the C-terminal domain. The N-terminal domain is pfam11757.


The actual alignment was detected with superfamily member pfam11479:

Pssm-ID: 371552  Cd Length: 80  Bit Score: 41.29  E-value: 2.05e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 77118930    93 FCKDEPKELVAFITRKYVELTGVGIRDVVKMEMRSLTRAVLNKLSLEMAFYVSPRAWKNAEWLELKFSPVKIFRDLLL 170
Cdd:pfam11479   3 LNCLSASDTLNFFVRRYMNITPTTFEDALRYSMRKVVSTVLFHLSSELKFEVTENTFKQNELLRLNKGLVVTWSQRLG 80
 
Name Accession Description Interval E-value
RSS_P20 pfam11757
Suppressor of RNA silencing P21-like N-terminal domain; This domain can be found at the ...
 1-89 3.01e-20

Suppressor of RNA silencing P21-like N-terminal domain; This domain can be found at the N-terminal region of is a large family of putative suppressors of RNA silencing proteins, P20-P25, from ssRNA positive-strand viruses such as Closterovirus, Potyvirus and Cucumovirus families. RNA silencing is one of the major mechanisms of defence against viruses, and, in response, some viruses have evolved or acquired functions for suppression of RNA silencing. These counter-defencive viral proteins with RNA silencing suppressor (RSS) activity were originally discovered in the members of plant virus genera Potyvirus and Cucumovirus. Each of the conserved blocks of amino acids found in P21-like proteins corresponds to a computer-predicted alpha-helix, with the most C-terminal element being 42 residues long. This suggests conservation of the predominantly alpha-helical secondary structure in the P21-like proteins. C-terminal domain entry found under pfam11479.


Pssm-ID: 403072  Cd Length: 94  Bit Score: 81.27  E-value: 3.01e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77118930     1 MRVIVSPYEAEDILKKSTDILRDI---DSGVL--NTKECIKVFSTITRDLHCAKASYQWGVDTGLYQRDCAEKRLIDTVE 75
Cdd:pfam11757   1 MKLYFSVYEYISLLSRVTSLLRRVrelSTNSTlsNLKECINDFNELTALLHSLKSDENDEVREGSYSMKSNKLRILSTIE 80

                          90
                  ....*....|....
gi 77118930    76 SNIRLAQPLVRQKV 89
Cdd:pfam11757  81 ENLREIRDLLRKRV 94
Suppressor_P21 pfam11479
RNA silencing suppressor P21 C-terminal domain; P21 is produced by Beet yellows virus to ...
 93-170 2.05e-05

RNA silencing suppressor P21 C-terminal domain; P21 is produced by Beet yellows virus to suppress the antiviral silencing response mounted by the host. P21 acts by binding directly to siRNA which is a mediator in the process. P21 has an octameric ring structure with a large central cavity. This is the C-terminal domain. The N-terminal domain is pfam11757.


Pssm-ID: 371552  Cd Length: 80  Bit Score: 41.29  E-value: 2.05e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 77118930    93 FCKDEPKELVAFITRKYVELTGVGIRDVVKMEMRSLTRAVLNKLSLEMAFYVSPRAWKNAEWLELKFSPVKIFRDLLL 170
Cdd:pfam11479   3 LNCLSASDTLNFFVRRYMNITPTTFEDALRYSMRKVVSTVLFHLSSELKFEVTENTFKQNELLRLNKGLVVTWSQRLG 80
 
Name Accession Description Interval E-value
RSS_P20 pfam11757
Suppressor of RNA silencing P21-like N-terminal domain; This domain can be found at the ...
 1-89 3.01e-20

Suppressor of RNA silencing P21-like N-terminal domain; This domain can be found at the N-terminal region of is a large family of putative suppressors of RNA silencing proteins, P20-P25, from ssRNA positive-strand viruses such as Closterovirus, Potyvirus and Cucumovirus families. RNA silencing is one of the major mechanisms of defence against viruses, and, in response, some viruses have evolved or acquired functions for suppression of RNA silencing. These counter-defencive viral proteins with RNA silencing suppressor (RSS) activity were originally discovered in the members of plant virus genera Potyvirus and Cucumovirus. Each of the conserved blocks of amino acids found in P21-like proteins corresponds to a computer-predicted alpha-helix, with the most C-terminal element being 42 residues long. This suggests conservation of the predominantly alpha-helical secondary structure in the P21-like proteins. C-terminal domain entry found under pfam11479.


Pssm-ID: 403072  Cd Length: 94  Bit Score: 81.27  E-value: 3.01e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 77118930     1 MRVIVSPYEAEDILKKSTDILRDI---DSGVL--NTKECIKVFSTITRDLHCAKASYQWGVDTGLYQRDCAEKRLIDTVE 75
Cdd:pfam11757   1 MKLYFSVYEYISLLSRVTSLLRRVrelSTNSTlsNLKECINDFNELTALLHSLKSDENDEVREGSYSMKSNKLRILSTIE 80

                          90
                  ....*....|....
gi 77118930    76 SNIRLAQPLVRQKV 89
Cdd:pfam11757  81 ENLREIRDLLRKRV 94
Suppressor_P21 pfam11479
RNA silencing suppressor P21 C-terminal domain; P21 is produced by Beet yellows virus to ...
 93-170 2.05e-05

RNA silencing suppressor P21 C-terminal domain; P21 is produced by Beet yellows virus to suppress the antiviral silencing response mounted by the host. P21 acts by binding directly to siRNA which is a mediator in the process. P21 has an octameric ring structure with a large central cavity. This is the C-terminal domain. The N-terminal domain is pfam11757.


Pssm-ID: 371552  Cd Length: 80  Bit Score: 41.29  E-value: 2.05e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 77118930    93 FCKDEPKELVAFITRKYVELTGVGIRDVVKMEMRSLTRAVLNKLSLEMAFYVSPRAWKNAEWLELKFSPVKIFRDLLL 170
Cdd:pfam11479   3 LNCLSASDTLNFFVRRYMNITPTTFEDALRYSMRKVVSTVLFHLSSELKFEVTENTFKQNELLRLNKGLVVTWSQRLG 80
 
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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