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P04506

- SIGM1_REOVL

UniProt

P04506 - SIGM1_REOVL

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Protein
Outer capsid protein sigma-1
Gene
S1
Organism
Reovirus type 1 (strain Lang) (T1L) (Mammalian orthoreovirus 1)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at protein leveli

Functioni

Fiber-like molecule that attaches the virion to the host cell membrane by binding to the primary receptor F11R/JAM-A and to sialic acid containing proteins (coreceptor). The interaction of sigma-1 with F11R is required for NF-kB activation and apoptosis. Binding to both sialic acid and F11R is required to induce maximal levels of apoptosis By similarity.

GO - Biological processi

  1. cell adhesion Source: InterPro
  2. viral entry into host cell Source: UniProtKB-KW
  3. virion attachment to host cell Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Hemagglutinin

Keywords - Biological processi

Host-virus interaction, Viral attachment to host cell, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Outer capsid protein sigma-1
Short name:
Sigma1
Alternative name(s):
Cell attachment protein
Hemagglutinin
Gene namesi
Name:S1
OrganismiReovirus type 1 (strain Lang) (T1L) (Mammalian orthoreovirus 1)
Taxonomic identifieri10884 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSpinareovirinaeOrthoreovirus
Virus hostiMammalia [TaxID: 40674]
ProteomesiUP000007253: Genome

Subcellular locationi

Virion By similarity
Note: Found in the outer capsid (36 copies) By similarity.

GO - Cellular componenti

  1. viral capsid Source: CACAO
  2. viral outer capsid Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Outer capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 470470Outer capsid protein sigma-1
PRO_0000040667Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi21 – 211N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi121 – 1211N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi205 – 2051N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi353 – 3531N-linked (GlcNAc...); by host Reviewed prediction

Post-translational modificationi

Undergoes dramatic conformational rearrangements during viral disassembly in the endocytic pathway By similarity.

Keywords - PTMi

Glycoprotein

Interactioni

Subunit structurei

Homotrimer. Interacts (via the head region) with human F11R By similarity.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi274 – 2785
Beta strandi281 – 2855
Turni290 – 2923
Beta strandi293 – 2964
Beta strandi299 – 3046
Beta strandi315 – 3184
Turni319 – 3224
Beta strandi323 – 3264
Helixi328 – 3314
Beta strandi333 – 34513
Beta strandi348 – 36114
Beta strandi364 – 3696
Beta strandi372 – 3754
Beta strandi379 – 3868
Helixi397 – 4004
Beta strandi409 – 41911
Beta strandi421 – 43717
Beta strandi440 – 4478
Beta strandi454 – 4585
Beta strandi461 – 4666

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4GU3X-ray3.60A/B/C261-470[»]
4GU4X-ray3.50A/B/C261-470[»]
ProteinModelPortaliP04506.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 324324Tail
Add
BLAST
Regioni325 – 470146Head
Add
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili26 – 4621 Reviewed prediction
Add
BLAST

Sequence similaritiesi

Keywords - Domaini

Coiled coil

Family and domain databases

Gene3Di2.10.25.20. 1 hit.
2.60.90.20. 1 hit.
InterProiIPR008982. Adenovirus_pIV-rel_att.
IPR009013. Attachment_protein_shaft_dom.
IPR027314. Sigma1_globular_dom.
IPR002592. Vir_attach_sigma1_reovir.
[Graphical view]
PfamiPF01664. Reo_sigma1. 1 hit.
[Graphical view]
SUPFAMiSSF49835. SSF49835. 1 hit.

Sequencei

Sequence statusi: Complete.

P04506-1 [UniParc]FASTAAdd to Basket

« Hide

MDASLITEIR KIVLQLSVSS NGSQSKEIEE IKKQVQVNVD DIRAANIKLD    50
GLGRQIADIS NSISTIESRL GEMDNRLVGI SSQVTQLSNS VSQNTQSISS 100
LGDRINAVEP RVDSLDTVTS NLTGRTSTLE ADVGSLRTEL AALTTRVTTE 150
VTRLDGLINS GQNSIGELST RLSNVETSMV TTAGRGLQKN GNTLNVIVGN 200
GMWFNSSNQL QLDLSGQSKG VGFVGTGMVV KIDTNYFAYN SNGEITLVSQ 250
INELPSRVST LESAKIDSVL PPLTVREASG VRTLSFGYDT SDFTIINSVL 300
SLRSRLTLPT YRYPLELDTA NNRVQVADRF GMRTGTWTGQ LQYQHPQLSW 350
RANVTLNLMK VDDWLVLSFS QMTTNSIMAD GKFVINFVSG LSSGWQTGDT 400
EPSSTIDPLS TTFAAVQFLN NGQRIDAFRI MGVSEWTDGE LEIKNYGGTY 450
TGHTQVYWAP WTIMYPCNVR 470
Length:470
Mass (Da):51,404
Last modified:November 1, 1990 - v2
Checksum:iF4D18989AD54491C
GO

Sequence cautioni

The sequence AAA47276.1 differs from that shown. Reason: Frameshift at position 410.
The sequence AAA66877.1 differs from that shown. Reason: Frameshift at positions 410 and 434.

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti91 – 911V → G in AAA66877. 1 Publication
Sequence conflicti91 – 911V → G in AAA47276. 1 Publication
Sequence conflicti169 – 1691S → F in AAA66877. 1 Publication
Sequence conflicti384 – 3841V → L in AAA47276. 1 Publication
Sequence conflicti409 – 4091L → W in AAA47242. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M10260 Genomic RNA. Translation: AAA66877.1. Frameshift.
M14779 Genomic RNA. Translation: AAA47276.1. Frameshift.
M32860 Genomic RNA. Translation: AAA47267.1.
M35963 Genomic RNA. Translation: AAA47242.1.
EF494445 Genomic RNA. Translation: ABP48923.1.
AH002406 Genomic RNA. Translation: AAA47240.1.
PIRiA04122. HMXRH1.
A34829. HMXRL1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M10260 Genomic RNA. Translation: AAA66877.1 . Frameshift.
M14779 Genomic RNA. Translation: AAA47276.1 . Frameshift.
M32860 Genomic RNA. Translation: AAA47267.1 .
M35963 Genomic RNA. Translation: AAA47242.1 .
EF494445 Genomic RNA. Translation: ABP48923.1 .
AH002406 Genomic RNA. Translation: AAA47240.1 .
PIRi A04122. HMXRH1.
A34829. HMXRL1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4GU3 X-ray 3.60 A/B/C 261-470 [» ]
4GU4 X-ray 3.50 A/B/C 261-470 [» ]
ProteinModelPortali P04506.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 2.10.25.20. 1 hit.
2.60.90.20. 1 hit.
InterProi IPR008982. Adenovirus_pIV-rel_att.
IPR009013. Attachment_protein_shaft_dom.
IPR027314. Sigma1_globular_dom.
IPR002592. Vir_attach_sigma1_reovir.
[Graphical view ]
Pfami PF01664. Reo_sigma1. 1 hit.
[Graphical view ]
SUPFAMi SSF49835. SSF49835. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Sequences of the S1 genes of the three serotypes of reovirus."
    Cashdollar L.W., Chmelo R.A., Wiener J.R., Joklik W.K.
    Proc. Natl. Acad. Sci. U.S.A. 82:24-28(1985) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  2. "Biosynthesis of reovirus-specified polypeptides. Molecular cDNA cloning and nucleotide sequence of the reovirus serotype 1 Lang strain bicistronic s1 mRNA which encodes the minor capsid polypeptide sigma 1a and the nonstructural polypeptide sigma 1bNS."
    Munemitsu S.M., Atwater J.A., Samuel C.E.
    Biochem. Biophys. Res. Commun. 140:508-514(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  3. "Identification of conserved domains in the cell attachment proteins of the three serotypes of reovirus."
    Duncan R., Horne D., Cashdollar L.W., Joklik W.K., Lee P.W.K.
    Virology 174:399-409(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  4. "Structure of the reovirus cell-attachment protein: a model for the domain organization of sigma 1."
    Nibert M.L., Dermody T.S., Fields B.N.
    J. Virol. 64:2976-2989(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
  5. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].
    Strain: Infectious clone.
  6. "Nature of the 3'-terminal sequences of the plus and minus strands of the S1 gene of reovirus serotypes 1, 2 and 3."
    Li J.K.-K., Keene J.D., Scheible P.P., Joklik W.K.
    Virology 105:41-51(1980) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA] OF 1-21.

Entry informationi

Entry nameiSIGM1_REOVL
AccessioniPrimary (citable) accession number: P04506
Secondary accession number(s): A4ZY30, P07937
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: November 1, 1990
Last modified: July 9, 2014
This is version 88 of the entry and version 2 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

External Data

Dasty 3

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