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P04383

- CAPSD_CARMV

UniProt

P04383 - CAPSD_CARMV

Protein

Capsid protein

Gene

ORF4

Organism
Carnation mottle virus (CarMV)
Status
Reviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 73 (01 Oct 2014)
      Sequence version 1 (20 Mar 1987)
      Previous versions | rss
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    Functioni

    Capsid protein self-assembles to form an icosahedral capsid with a T=3 symmetry, about 32-35 nm in diameter, and consisting of 180 capsid proteins. Also acts as a suppressor of RNA-mediated gene silencing, also known as post-transcriptional gene silencing (PTGS), a mechanism of plant viral defense that limits the accumulation of viral RNAs By similarity.By similarity

    Cofactori

    Binds calcium ions. Calcium ions probably promote virus assembly and stabilize the virus particle By similarity.By similarity

    GO - Molecular functioni

    1. RNA binding Source: UniProtKB-KW
    2. structural molecule activity Source: InterPro

    Keywords - Ligandi

    Calcium, RNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Capsid protein
    Alternative name(s):
    Coat protein
    p38
    Gene namesi
    ORF Names:ORF4
    OrganismiCarnation mottle virus (CarMV)
    Taxonomic identifieri11986 [NCBI]
    Taxonomic lineageiVirusesssRNA positive-strand viruses, no DNA stageTombusviridaeCarmovirus
    Virus hostiBegonia [TaxID: 3681]
    Dianthus barbatus [TaxID: 278075]
    Dianthus caryophyllus (Carnation) (Clove pink) [TaxID: 3570]
    Dianthus chinensis [TaxID: 118431]
    Dianthus superbus [TaxID: 288950]
    Malus domestica (Apple) (Pyrus malus) [TaxID: 3750]
    Saponaria officinalis (Common soapwort) (Lychnis saponaria) [TaxID: 3572]

    Subcellular locationi

    Virion By similarity

    GO - Cellular componenti

    1. T=3 icosahedral viral capsid Source: UniProtKB-KW

    Keywords - Cellular componenti

    Capsid protein, T=3 icosahedral capsid protein, Virion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 348348Capsid proteinPRO_0000222860Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer. Homomultimer.By similarity

    Structurei

    Secondary structure

    1
    348
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi84 – 9512
    Beta strandi98 – 1014
    Beta strandi103 – 1097
    Turni114 – 1163
    Helixi118 – 1247
    Beta strandi127 – 14115
    Beta strandi150 – 1578
    Helixi167 – 1715
    Beta strandi173 – 1808
    Beta strandi185 – 1895
    Helixi206 – 2094
    Beta strandi212 – 2198
    Beta strandi221 – 2255
    Beta strandi227 – 24216
    Beta strandi249 – 2513
    Helixi255 – 2573
    Beta strandi263 – 2686
    Beta strandi271 – 2766
    Beta strandi278 – 28710
    Beta strandi289 – 2946
    Beta strandi298 – 3014
    Beta strandi304 – 3118
    Turni312 – 3154
    Beta strandi316 – 32510
    Beta strandi328 – 3347
    Beta strandi342 – 3476

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1OPOX-ray3.20A/B/C1-348[»]
    ProteinModelPortaliP04383.
    SMRiP04383. Positions 81-348.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP04383.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1 – 8181R domain, disordered, interaction with RNAAdd
    BLAST
    Regioni82 – 239158S domain, virion shellAdd
    BLAST
    Regioni240 – 348109P domain, projectingAdd
    BLAST

    Sequence similaritiesi

    Family and domain databases

    Gene3Di2.60.120.20. 1 hit.
    InterProiIPR000937. Capsid_prot_S-dom_vir.
    IPR013669. Coat_prot_C_Carmovir.
    IPR029053. Viral_coat.
    [Graphical view]
    PfamiPF08462. Carmo_coat_C. 1 hit.
    PF00729. Viral_coat. 1 hit.
    [Graphical view]
    PRINTSiPR00233. ICOSAHEDRAL.
    PROSITEiPS00555. ICOSAH_VIR_COAT_S. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P04383-1 [UniParc]FASTAAdd to Basket

    « Hide

    MENKGEKIAM NPTVQTLAQK GDKLAVKLVT RGWASLSTNQ KRRAEMLAGY    50
    TPAILAFTPR RPRMTNPPPR TSRNSPGQAG KSMTMSKTEL LSTVKGTTGV 100
    IPSFEDWVVS PRNVAVFPQL SLLATNFNKY RITALTVKYS PACSFETNGR 150
    VALGFNDDAS DTPPTTKVGF YDLGKHVETA AQTAKDLVIP VDGKTRFIRD 200
    SASDDAKLVD FGRIVLSTYG FDKADTVVGE LFIQYTIVLS DPTKTAKISQ 250
    ASNDKVSDGP TYVVPSVNGN ELQLRVVAAG KWCIIVRGTV EGGFTKPTLI 300
    GPGISGDVDY ESARPIAVCE LVTQMEGQIL KITKTSAEQP LQWVVYRM 348
    Length:348
    Mass (Da):37,787
    Last modified:March 20, 1987 - v1
    Checksum:iE9EEA336C45B0D39
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02986 Genomic RNA. Translation: CAA26728.1.
    PIRiA04209. VCVECV.

    Cross-referencesi

    Web resourcesi

    Virus Particle ExploreR db

    Icosahedral capsid structure

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02986 Genomic RNA. Translation: CAA26728.1 .
    PIRi A04209. VCVECV.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1OPO X-ray 3.20 A/B/C 1-348 [» ]
    ProteinModelPortali P04383.
    SMRi P04383. Positions 81-348.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Miscellaneous databases

    EvolutionaryTracei P04383.

    Family and domain databases

    Gene3Di 2.60.120.20. 1 hit.
    InterProi IPR000937. Capsid_prot_S-dom_vir.
    IPR013669. Coat_prot_C_Carmovir.
    IPR029053. Viral_coat.
    [Graphical view ]
    Pfami PF08462. Carmo_coat_C. 1 hit.
    PF00729. Viral_coat. 1 hit.
    [Graphical view ]
    PRINTSi PR00233. ICOSAHEDRAL.
    PROSITEi PS00555. ICOSAH_VIR_COAT_S. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Nucleotide sequence and genome organization of carnation mottle virus RNA."
      Guilley H., Carrington J.C., Balazs E., Jonard G., Richards K., Morris T.J.
      Nucleic Acids Res. 13:6663-6677(1985) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    2. Cited for: X-RAY CRYSTALLOGRAPHY (3.2 ANGSTROMS).

    Entry informationi

    Entry nameiCAPSD_CARMV
    AccessioniPrimary (citable) accession number: P04383
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 20, 1987
    Last sequence update: March 20, 1987
    Last modified: October 1, 2014
    This is version 73 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programViral Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3