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Protein

Outer capsid protein sigma-3

Gene

S4

Organism
Reovirus type 1 (strain Lang) (T1L) (Mammalian orthoreovirus 1)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Stimulates translation by blocking the activation of the dsRNA-dependent protein kinase EIF2AK2/PKR, thereby inhibiting the host interferon response. Sigma3 prevents the activation of EIF2AK2 by competing with the kinase for dsRNA-binding (By similarity).By similarity
The viral outer shell polypeptides, of which sigma-3 is one, impose structural constraints that prevent elongation of nascent transcripts by the RNA-dependent RNA polymerase lambda-3.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri51 – 73CCHC-typeBy similarityAdd BLAST23

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Host-virus interaction, Inhibition of host innate immune response by virus, Inhibition of host interferon signaling pathway by virus, Inhibition of host PKR by virus, Interferon antiviral system evasion, Transcription, Transcription regulation, Translation regulation, Viral immunoevasion

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Outer capsid protein sigma-3
Short name:
Sigma3
Gene namesi
Name:S4
OrganismiReovirus type 1 (strain Lang) (T1L) (Mammalian orthoreovirus 1)
Taxonomic identifieri10884 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSpinareovirinaeOrthoreovirus
Virus hostiMammalia [TaxID: 40674]
Proteomesi
  • UP000007253 Componenti: Genome

Subcellular locationi

  • Virion By similarity

  • Note: Found in the outer capsid. Each subunit is positioned with the small lobe anchoring it to the protein mu1 on the surface of the virion, and the large lobe, the site of initial cleavages during entry-related proteolytic disassembly, protruding outwards (By similarity).By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Outer capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002227541 – 365Outer capsid protein sigma-3Add BLAST365

Post-translational modificationi

Cleaved during virus the endosomal proteolytic disassembly of the outer capsid.By similarity

Interactioni

Subunit structurei

Heterohexamer of three sigma-3 and three Mu-1 proteins. The RNA-binding form is probably a homodimer (By similarity).By similarity

Protein-protein interaction databases

IntActiP07939. 10 interactors.

Structurei

Secondary structure

1365
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi8 – 18Combined sources11
Turni19 – 21Combined sources3
Beta strandi25 – 27Combined sources3
Turni28 – 30Combined sources3
Beta strandi41 – 45Combined sources5
Beta strandi48 – 51Combined sources4
Turni52 – 54Combined sources3
Beta strandi57 – 63Combined sources7
Helixi79 – 81Combined sources3
Helixi83 – 110Combined sources28
Helixi115 – 123Combined sources9
Beta strandi126 – 130Combined sources5
Helixi133 – 135Combined sources3
Turni141 – 143Combined sources3
Helixi159 – 176Combined sources18
Beta strandi180 – 186Combined sources7
Helixi189 – 192Combined sources4
Helixi199 – 203Combined sources5
Beta strandi221 – 223Combined sources3
Helixi226 – 230Combined sources5
Helixi232 – 234Combined sources3
Helixi236 – 242Combined sources7
Helixi246 – 249Combined sources4
Helixi252 – 254Combined sources3
Beta strandi259 – 261Combined sources3
Beta strandi270 – 272Combined sources3
Helixi275 – 277Combined sources3
Beta strandi282 – 284Combined sources3
Helixi288 – 292Combined sources5
Helixi293 – 295Combined sources3
Helixi296 – 305Combined sources10
Helixi308 – 315Combined sources8
Helixi319 – 334Combined sources16
Helixi338 – 341Combined sources4
Beta strandi351 – 354Combined sources4
Beta strandi356 – 358Combined sources3
Beta strandi362 – 365Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1JMUX-ray2.80G/H/I1-365[»]
2CSEelectron microscopy7.00D/E/F/G/H/I/M/N/O/S1-365[»]
ProteinModelPortaliP07939.
SMRiP07939.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP07939.

Family & Domainsi

Sequence similaritiesi

Contains 1 CCHC-type zinc finger.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri51 – 73CCHC-typeBy similarityAdd BLAST23

Keywords - Domaini

Zinc-finger

Family and domain databases

InterProiIPR000153. Reo_capsid_sigma3.
IPR023634. Reovirus_capsid_sigma-3_dom.
[Graphical view]
PfamiPF00979. Reovirus_cap. 1 hit.
[Graphical view]
SUPFAMiSSF64465. SSF64465. 1 hit.

Sequencei

Sequence statusi: Complete.

P07939-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEVCLPNGHQ IVDLINNAFE GRVSIYSAQE GWDKTISAQP DMMVCGGAVV
60 70 80 90 100
CMHCLGVVGS LQRKLKHLPH HRCNQQIRHQ DYVDVQFADR VTAHWKRGML
110 120 130 140 150
SFVAQMHAMM NDVSPEDLDR VRTEGGSLVE LNWLQVDPNS MFRSIHSSWT
160 170 180 190 200
DPLQVVDDLD TKLDQYWTAL NLMIDSSDLV PNFMMRDPSH AFNGVRLEGD
210 220 230 240 250
ARQTQFSRTF DSRSSLEWGV MVYDYSELEH DPSKGRAYRK ELVTPARDFG
260 270 280 290 300
HFGLSHYSRA TTPILGKMPA VFSGMLTGNC KMYPFIKGTA KLKTVRKLVD
310 320 330 340 350
SVNHAWGVEK IRYALGPGGM TGWYDRTMQQ APIVLTPAAL TMFSDTTKFG
360
DLDYPVMIGD PMILG
Length:365
Mass (Da):41,156
Last modified:August 1, 1988 - v1
Checksum:i859808F2BF92B141
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti325D → N in CAA43783 (PubMed:1736524).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M13139 Genomic RNA. Translation: AAA47272.1.
X61586 Genomic RNA. Translation: CAA43783.1.
PIRiA24245. MNXRS4.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M13139 Genomic RNA. Translation: AAA47272.1.
X61586 Genomic RNA. Translation: CAA43783.1.
PIRiA24245. MNXRS4.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1JMUX-ray2.80G/H/I1-365[»]
2CSEelectron microscopy7.00D/E/F/G/H/I/M/N/O/S1-365[»]
ProteinModelPortaliP07939.
SMRiP07939.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP07939. 10 interactors.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Miscellaneous databases

EvolutionaryTraceiP07939.

Family and domain databases

InterProiIPR000153. Reo_capsid_sigma3.
IPR023634. Reovirus_capsid_sigma-3_dom.
[Graphical view]
PfamiPF00979. Reovirus_cap. 1 hit.
[Graphical view]
SUPFAMiSSF64465. SSF64465. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiSIGM3_REOVL
AccessioniPrimary (citable) accession number: P07939
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: August 1, 1988
Last modified: November 30, 2016
This is version 92 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, Complete proteome, Reference proteome

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.