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Q9J7Z0 (CAPSD_PAV) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 76. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Capsid protein alpha

Cleaved into the following 2 chains:

  1. Capsid protein beta
    EC=3.4.23.44
    Alternative name(s):
    Coat protein beta
    Nodavirus endopeptidase
  2. Peptide gamma
    Alternative name(s):
    Coat protein gamma
Gene names
Name:alpha
OrganismPariacoto virus (PaV)
Taxonomic identifier103782 [NCBI]
Taxonomic lineageVirusesssRNA positive-strand viruses, no DNA stageNodaviridaeAlphanodavirus
Virus hostSpodoptera eridania (Southern armyworm) [TaxID: 37547]

Protein attributes

Sequence length401 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Capsid protein alpha self-assembles to form an icosahedral procapsid with a T=3 symmetry, about 30 nm in diameter, and consisting of 60 capsid proteins trimers. In addition, calcium ions are incorporated per capsid during assembly. The capsid encapsulates the two genomic RNAs. Capsid maturation occurs via autoproteolytic cleavage of capsid protein alpha generating capsid protein beta and the membrane-active peptide gamma By similarity.

Peptide gamma: membrane-permeabilizing peptide produced by virus maturation, thereby creating the infectious virion. After endocytosis into the host cell, peptide gamma is probably exposed in endosomes, where it permeabilizes the endosomal membrane, facilitating translocation of viral capsid or RNA into the cytoplasm By similarity.

Catalytic activity

Hydrolysis of an asparaginyl bond involved in the maturation of the structural protein of the virus, typically -Asn-|-Ala- or -Asn-|-Phe-.

Subcellular location

Capsid protein beta: Virion Potential.

Peptide gamma: Virion Potential. Note: located inside the capsid Potential.

Post-translational modification

Capsid protein alpha autocatalytically maturates into capsid protein beta and peptide gamma By similarity.

Sequence similarities

Belongs to the peptidase A6 family.

Mass spectrometry

Molecular mass is 4246 Da from positions 362 - 401. Determined by MALDI. Ref.1

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 401401Capsid protein alpha
PRO_0000402390
Chain1 – 361361Capsid protein beta
PRO_0000039198
Chain362 – 40140Peptide gamma
PRO_0000039199

Sites

Active site681 By similarity
Metal binding2491Calcium
Metal binding2511Calcium

Amino acid modifications

Disulfide bond62 ↔ 316 By similarity

Secondary structure

........................................................... 401
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q9J7Z0 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: 1E518977DE7A2C90

FASTA40143,326
        10         20         30         40         50         60 
MVSRTKNRRN KARKVVSRST ALVPMAPASQ RTGPAPRKPR KRNQALVRNP RLTDAGLAFL 

        70         80         90        100        110        120 
KCAFAAPDFS VDPGKGIPDN FHGRTLAIKD CNTTSVVFTP NTDTYIVVAP VPGFAYFRAE 

       130        140        150        160        170        180 
VAVGAQPTTF VGVPYPTYAT NFGAGSQNGL PAVNNYSKFR YASMACGLYP TSNMMQFSGS 

       190        200        210        220        230        240 
VQVWRVDLNL SEAVNPAVTA ITPAPGVFAN FVDKRINGLR GIRPLAPRDN YSGNFIDGAY 

       250        260        270        280        290        300 
TFAFDKSTDF EWCDFVRSLE FSESNVLGAA TAMKLLAPGG GTDTTLTGLG NVNTLVYKIS 

       310        320        330        340        350        360 
TPTGAVNTAI LRTWNCIELQ PYTDSALFQF SGVSPPFDPL ALECYHNLKM RFPVAVSSRE 

       370        380        390        400 
NSKFWEGVLR VLNQISGTLS VIPGPVGTIS AGVHQLTGMY M 

« Hide

References

[1]"Characterization and construction of functional cDNA clones of Pariacoto virus, the first Alphanodavirus isolated outside Australasia."
Johnson K.N., Zeddam J.-L., Ball L.A.
J. Virol. 74:5123-5132(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA], MASS SPECTROMETRY.
[2]"The structure of pariacoto virus reveals a dodecahedral cage of duplex RNA."
Tang L., Johnson K.N., Ball L.A., Lin T., Yeager M., Johnson J.E.
Nat. Struct. Biol. 8:77-83(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (3.0 ANGSTROMS) OF 7-401.

Web resources

Virus Particle ExploreR db

Icosahedral capsid structure

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF171943 Genomic RNA. Translation: AAF71693.1.
RefSeqNP_620111.1. NC_003692.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1F8VX-ray3.00A/B/C7-361[»]
D/E/F362-401[»]
ProteinModelPortalQ9J7Z0.
SMRQ9J7Z0. Positions 7-361.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID956349.

Family and domain databases

Gene3D1.20.5.280. 1 hit.
2.60.120.20. 1 hit.
InterProIPR023348. Pariacoto_capsid_alpha_C.
IPR000696. Peptidase_A6.
IPR029053. Viral_coat.
[Graphical view]
PfamPF01829. Peptidase_A6. 1 hit.
[Graphical view]
PRINTSPR00863. NODAVIRPTASE.
ProtoNetSearch...

Other

EvolutionaryTraceQ9J7Z0.

Entry information

Entry nameCAPSD_PAV
AccessionPrimary (citable) accession number: Q9J7Z0
Entry history
Integrated into UniProtKB/Swiss-Prot: April 16, 2002
Last sequence update: October 1, 2000
Last modified: July 9, 2014
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Peptidase families

Classification of peptidase families and list of entries

PDB cross-references

Index of Protein Data Bank (PDB) cross-references