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Protein

Capsid protein

Gene

ORF4

Organism
Melon necrotic spot virus (MNSV)
Status
Reviewed-Annotation score: 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).By similarity

Cofactori

Ca2+Note: Binds 4 Ca2+ ions per icosahedral asymmetric unit, itself composed of three capsid protein subunits. Ca2+ ions probably promote virus assembly and stabilize the virus particle.

GO - Molecular functioni

Complete GO annotation...

Keywords - Ligandi

Calcium, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Capsid protein
Alternative name(s):
Coat protein
p42
Gene namesi
ORF Names:ORF4
OrganismiMelon necrotic spot virus (MNSV)
Taxonomic identifieri11987 [NCBI]
Taxonomic lineageiVirusesssRNA virusesssRNA positive-strand viruses, no DNA stageTombusviridaeCarmovirus
Virus hostiCucumis melo (Muskmelon) [TaxID: 3656]
Cucumis sativus (Cucumber) [TaxID: 3659]

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, T=3 icosahedral capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002228641 – 390Capsid proteinAdd BLAST390

Interactioni

Subunit structurei

Homodimer. Homomultimer.By similarity

Structurei

Secondary structure

1390
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi88 – 90Combined sources3
Beta strandi96 – 107Combined sources12
Helixi116 – 118Combined sources3
Turni122 – 124Combined sources3
Beta strandi125 – 127Combined sources3
Turni132 – 134Combined sources3
Turni136 – 138Combined sources3
Helixi139 – 142Combined sources4
Beta strandi145 – 159Combined sources15
Beta strandi168 – 175Combined sources8
Helixi185 – 188Combined sources4
Beta strandi192 – 197Combined sources6
Beta strandi203 – 207Combined sources5
Helixi224 – 226Combined sources3
Beta strandi231 – 238Combined sources8
Beta strandi241 – 243Combined sources3
Beta strandi246 – 256Combined sources11
Beta strandi265 – 271Combined sources7
Turni273 – 275Combined sources3
Beta strandi281 – 285Combined sources5
Helixi290 – 292Combined sources3
Beta strandi293 – 296Combined sources4
Beta strandi299 – 302Combined sources4
Beta strandi308 – 320Combined sources13
Beta strandi328 – 341Combined sources14
Beta strandi344 – 353Combined sources10
Beta strandi359 – 361Combined sources3
Beta strandi363 – 366Combined sources4
Beta strandi374 – 382Combined sources9
Helixi384 – 386Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ZAHX-ray2.81A/B/C60-390[»]
ProteinModelPortaliP19899.
SMRiP19899.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP19899.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 94R domain, disordered, interaction with RNAAdd BLAST94
Regioni95 – 256S domain, virion shellAdd BLAST162
Regioni257 – 390P domain, projectingAdd BLAST134

Sequence similaritiesi

Family and domain databases

Gene3Di2.60.120.20. 1 hit.
InterProiIPR000937. Capsid_prot_S-dom_vir.
IPR029053. Viral_coat.
[Graphical view]
PfamiPF00729. Viral_coat. 1 hit.
[Graphical view]
PRINTSiPR00233. ICOSAHEDRAL.
PROSITEiPS00555. ICOSAH_VIR_COAT_S. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P19899-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAMVKRINNL PTVKLAKQAL PLLANPKLVN KAIDVVPLVV QGGRKLSKAA
60 70 80 90 100
KRLLGAYGGN ISYTEGAKPG AISAPVAISR RVAGMKPRFV RSEGSVKIVH
110 120 130 140 150
REFIASVLPS SDLTVNNGDV NIGKYRVNPS NNALFTWLQG QAQLYDMYRF
160 170 180 190 200
TRLRITYIPT TGSTSTGRVS LLWDRDSQDP LPIDRAAISS YAHSADSAPW
210 220 230 240 250
AENVLVVPCD NTWRYMNDTN AVDRKLVDFG QFLFATYSGA GSTAHGDLYV
260 270 280 290 300
EYAVEFKDPQ PIAGMVCMFD RLVSLSEVGS TIKGVNYIAD RDVITTGGNI
310 320 330 340 350
GVNINIPGTY LVTIVLNATS IGPLTFTGNS KLVGNSLNLT SSGASALTFT
360 370 380 390
LNSTGVPNSS DSSFSVGTVV ALTRVRMTIT RCSPETAYLA
Length:390
Mass (Da):41,853
Last modified:February 1, 1991 - v1
Checksum:i62D6AF207BC7EA03
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M29671 Genomic RNA. Translation: AAB02435.1.
D00562 Genomic RNA. Translation: BAA00436.1.
D12536 Genomic RNA. Translation: BAA02104.1.
PIRiJQ0169. VCVEMN.
RefSeqiNP_041231.1. NC_001504.1.

Genome annotation databases

GeneIDi1491981.
KEGGivg:1491981.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M29671 Genomic RNA. Translation: AAB02435.1.
D00562 Genomic RNA. Translation: BAA00436.1.
D12536 Genomic RNA. Translation: BAA02104.1.
PIRiJQ0169. VCVEMN.
RefSeqiNP_041231.1. NC_001504.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ZAHX-ray2.81A/B/C60-390[»]
ProteinModelPortaliP19899.
SMRiP19899.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi1491981.
KEGGivg:1491981.

Miscellaneous databases

EvolutionaryTraceiP19899.

Family and domain databases

Gene3Di2.60.120.20. 1 hit.
InterProiIPR000937. Capsid_prot_S-dom_vir.
IPR029053. Viral_coat.
[Graphical view]
PfamiPF00729. Viral_coat. 1 hit.
[Graphical view]
PRINTSiPR00233. ICOSAHEDRAL.
PROSITEiPS00555. ICOSAH_VIR_COAT_S. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCAPSD_MNSV
AccessioniPrimary (citable) accession number: P19899
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1991
Last sequence update: February 1, 1991
Last modified: November 2, 2016
This is version 62 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.