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Conserved domains on  [gi|156603883|ref|YP_001429590|]
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nucleic acid binding protein [Potato virus P]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Carla_C4 super family cl03285
Carlavirus putative nucleic acid binding protein; This family of carlavirus nucleic acid ...
 15-92 7.34e-29

Carlavirus putative nucleic acid binding protein; This family of carlavirus nucleic acid binding proteins includes a motif for a potential C-4 type zinc finger this has four highly conserved cysteine residues and is a conserved feature of the carlaviruses 3' terminal ORF. These proteins may function as viral transcriptional regulators. The carlavirus family includes garlic latent virus and potato virus S and M, these viruses are positive strand, ssRNA with no DNA stage.


The actual alignment was detected with superfamily member pfam01623:

Pssm-ID: 250753  Cd Length: 91  Bit Score: 99.76  E-value: 7.34e-29
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 156603883   15 VCSKFGVLDINLCVHIARMATERRVGGGRSRYAKRRRAKSIGRCERCYRIFPP-VCNSKCDNKTCRVGISPNSAVVNFI 92
Cdd:pfam01623  13 VYKLGGVFPFDICVDIISRIAAKIVGGGRSKYARRRRARSIGRCHRCYRVYPPfVFTSKCDNRTCVPGISYNYKVADFI 91
 
Name Accession Description Interval E-value
Carla_C4 pfam01623
Carlavirus putative nucleic acid binding protein; This family of carlavirus nucleic acid ...
 15-92 7.34e-29

Carlavirus putative nucleic acid binding protein; This family of carlavirus nucleic acid binding proteins includes a motif for a potential C-4 type zinc finger this has four highly conserved cysteine residues and is a conserved feature of the carlaviruses 3' terminal ORF. These proteins may function as viral transcriptional regulators. The carlavirus family includes garlic latent virus and potato virus S and M, these viruses are positive strand, ssRNA with no DNA stage.


Pssm-ID: 250753  Cd Length: 91  Bit Score: 99.76  E-value: 7.34e-29
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 156603883   15 VCSKFGVLDINLCVHIARMATERRVGGGRSRYAKRRRAKSIGRCERCYRIFPP-VCNSKCDNKTCRVGISPNSAVVNFI 92
Cdd:pfam01623  13 VYKLGGVFPFDICVDIISRIAAKIVGGGRSKYARRRRARSIGRCHRCYRVYPPfVFTSKCDNRTCVPGISYNYKVADFI 91
 
Name Accession Description Interval E-value
Carla_C4 pfam01623
Carlavirus putative nucleic acid binding protein; This family of carlavirus nucleic acid ...
 15-92 7.34e-29

Carlavirus putative nucleic acid binding protein; This family of carlavirus nucleic acid binding proteins includes a motif for a potential C-4 type zinc finger this has four highly conserved cysteine residues and is a conserved feature of the carlaviruses 3' terminal ORF. These proteins may function as viral transcriptional regulators. The carlavirus family includes garlic latent virus and potato virus S and M, these viruses are positive strand, ssRNA with no DNA stage.


Pssm-ID: 250753  Cd Length: 91  Bit Score: 99.76  E-value: 7.34e-29
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 156603883   15 VCSKFGVLDINLCVHIARMATERRVGGGRSRYAKRRRAKSIGRCERCYRIFPP-VCNSKCDNKTCRVGISPNSAVVNFI 92
Cdd:pfam01623  13 VYKLGGVFPFDICVDIISRIAAKIVGGGRSKYARRRRARSIGRCHRCYRVYPPfVFTSKCDNRTCVPGISYNYKVADFI 91
Viral_NABP pfam05515
Viral nucleic acid binding; This family is common to ssRNA positive-strand viruses and are ...
 29-81 4.65e-03

Viral nucleic acid binding; This family is common to ssRNA positive-strand viruses and are commonly described as nucleic acid binding proteins (NABP).


Pssm-ID: 283230  Cd Length: 190  Bit Score: 34.59  E-value: 4.65e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 156603883   29 HIARMATERRVGGGRSRYAKRRRAKSIGRCERCYRifPPVCNskcDNKTCRVG 81
Cdd:pfam05515  98 HLNRCALDNKPFLGSSKCAKKRRAARLNRCFDCGA--PLYLN---DDHTCKPG 145
 
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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