UniProtKB - P12871 (CAPSD_NODAM)
Protein
Capsid protein alpha
Gene
alpha
Organism
Nodamura virus (strain Mag115) (NoV)
Status
Functioni
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. 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).By similarity
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).By similarity
Catalytic activityi
- Hydrolysis of an asparaginyl bond involved in the maturation of the structural protein of the virus, typically -Asn-|-Ala- or -Asn-|-Phe-. EC:3.4.23.44
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 67 | By similarity | 1 |
GO - Molecular functioni
- aspartic-type endopeptidase activity Source: UniProtKB-KW
GO - Biological processi
- permeabilization of host organelle membrane involved in viral entry into host cell Source: UniProtKB-KW
- viral entry via permeabilization of inner membrane Source: UniProtKB-KW
Keywordsi
Molecular function | Aspartyl protease, Hydrolase, Protease |
Biological process | Viral penetration into host cytoplasm, Viral penetration via permeabilization of host membrane, Virus entry into host cell |
Protein family/group databases
MEROPSi | N01.001 |
TCDBi | 1.A.61.1.1, the insect nodavirus channel-forming chain f (gamma-peptide) family |
Names & Taxonomyi
Protein namesi | Recommended name: Capsid protein alphaCleaved into the following 2 chains: Alternative name(s): Coat protein beta Nodavirus endopeptidase Alternative name(s): Coat protein gamma |
Gene namesi | Name:alpha |
Organismi | Nodamura virus (strain Mag115) (NoV) |
Taxonomic identifieri | 914672 [NCBI] |
Taxonomic lineagei | Viruses › Riboviria › Orthornavirae › Kitrinoviricota › Magsaviricetes › Nodamuvirales › Nodaviridae › Alphanodavirus › |
Virus hosti | Aedes [TaxID: 7158] Lepidoptera (butterflies and moths) [TaxID: 7088] Sus scrofa (Pig) [TaxID: 9823] |
Proteomesi |
|
Subcellular locationi
- Virion Curated
- Virion Curated Note: located inside the capsid.Curated
Keywords - Cellular componenti
Capsid protein, T=3 icosahedral capsid protein, VirionPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000402389 | 1 – 399 | Capsid protein alphaAdd BLAST | 399 | |
ChainiPRO_0000039196 | 1 – 355 | Capsid protein betaAdd BLAST | 355 | |
ChainiPRO_0000039197 | 356 – 399 | Peptide gammaAdd BLAST | 44 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Disulfide bondi | 61 ↔ 310 |
Post-translational modificationi
Capsid protein alpha autocatalytically maturates into capsid protein beta and peptide gamma.By similarity
Keywords - PTMi
Disulfide bondStructurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | P12871 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P12871 |
Family & Domainsi
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 7 – 10 | Poly-Arg | 4 | |
Compositional biasi | 29 – 38 | Poly-Arg | 10 |
Sequence similaritiesi
Belongs to the peptidase A6 family.Curated
Family and domain databases
Gene3Di | 2.60.120.20, 1 hit |
InterProi | View protein in InterPro IPR000696, Peptidase_A6 IPR029053, Viral_coat |
Pfami | View protein in Pfam PF01829, Peptidase_A6, 1 hit |
PRINTSi | PR00863, NODAVIRPTASE |
i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
P12871-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MVSKAARRRR AAPRQQQRQQ SNRASNQPRR RRARRTRRQQ RMAATNNMLK
60 70 80 90 100
MSAPGLDFLK CAFASPDFST DPGKGIPDKF QGLVLPKKHC LTQSITFTPG
110 120 130 140 150
KQTMLLVAPI PGIACLKAEA NVGASFSGVP LASVEFPGFD QLFGTSATDT
160 170 180 190 200
AANVTAFRYA SMAAGVYPTS NLMQFAGSIQ VYKIPLKQVL NSYSQTVATV
210 220 230 240 250
PPTNLAQNTI AIDGLEALDA LPNNNYSGSF IEGCYSQSVC NEPEFEFHPI
260 270 280 290 300
MEGYASVPPA NVTNAQASMF TNLTFSGARY TGLGDMDAIA ILVTTPTGAV
310 320 330 340 350
NTAVLKVWAC VEYRPNPNST LYEFARESPA NDEYALAAYR KIARDIPIAV
360 370 380 390
ACKDNATFWE RVRSILKSGL NFASTIPGPV GVAATGIKGI IETIGSLWV
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 279 | R → A in AAF97862 (PubMed:12573589).Curated | 1 | |
Sequence conflicti | 393 | T → A in AAF97862 (PubMed:12573589).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X15961 Genomic RNA Translation: CAA34083.1 AF174534 Genomic RNA Translation: AAF97862.1 |
PIRi | C34011, VCBBND |
RefSeqi | NP_077732.1, NC_002691.1 |
Genome annotation databases
GeneIDi | 962119 |
KEGGi | vg:962119 |
Similar proteinsi
Cross-referencesi
Web resourcesi
Virus Particle ExploreR db Icosahedral capsid structure |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | X15961 Genomic RNA Translation: CAA34083.1 AF174534 Genomic RNA Translation: AAF97862.1 |
PIRi | C34011, VCBBND |
RefSeqi | NP_077732.1, NC_002691.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1NOV | X-ray | 3.50 | A/B/C | 1-355 | [»] | |
D/E/F | 356-399 | [»] | ||||
SMRi | P12871 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein family/group databases
MEROPSi | N01.001 |
TCDBi | 1.A.61.1.1, the insect nodavirus channel-forming chain f (gamma-peptide) family |
Genome annotation databases
GeneIDi | 962119 |
KEGGi | vg:962119 |
Miscellaneous databases
EvolutionaryTracei | P12871 |
Family and domain databases
Gene3Di | 2.60.120.20, 1 hit |
InterProi | View protein in InterPro IPR000696, Peptidase_A6 IPR029053, Viral_coat |
Pfami | View protein in Pfam PF01829, Peptidase_A6, 1 hit |
PRINTSi | PR00863, NODAVIRPTASE |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | CAPSD_NODAM | |
Accessioni | P12871Primary (citable) accession number: P12871 Secondary accession number(s): Q9IMM2 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | October 1, 1989 |
Last sequence update: | October 1, 1989 | |
Last modified: | April 7, 2021 | |
This is version 127 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Viral Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- Peptidase families
Classification of peptidase families and list of entries - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families