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P04383

- CAPSD_CARMV

UniProt

P04383 - CAPSD_CARMV

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Protein

Capsid protein

Gene
ORF4
Organism
Carnation mottle virus (CarMV)
Status
Reviewed - Annotation score: 2 out of 5 - Experimental evidence at protein leveli

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.

Cofactori

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

GO - Molecular functioni

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

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
Complete GO annotation...

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 By similarity. 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.

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: July 9, 2014
This is version 72 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

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