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P04506 (SIGM1_REOVL) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 87. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Outer capsid protein sigma-1

Short name=Sigma1
Alternative name(s):
Cell attachment protein
Hemagglutinin
Gene names
Name:S1
OrganismReovirus type 1 (strain Lang) (T1L) (Mammalian orthoreovirus 1) [Reference proteome]
Taxonomic identifier10884 [NCBI]
Taxonomic lineageVirusesdsRNA virusesReoviridaeSpinareovirinaeOrthoreovirus
Virus hostMammalia [TaxID: 40674]

Protein attributes

Sequence length470 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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.

Subunit structure

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

Subcellular location

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

Post-translational modification

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

Sequence similarities

Belongs to the orthoreovirus sigma-1 protein family.

Sequence caution

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 annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 470470Outer capsid protein sigma-1
PRO_0000040667

Regions

Region1 – 324324Tail
Region325 – 470146Head
Coiled coil26 – 4621 Potential

Amino acid modifications

Glycosylation211N-linked (GlcNAc...); by host Potential
Glycosylation1211N-linked (GlcNAc...); by host Potential
Glycosylation2051N-linked (GlcNAc...); by host Potential
Glycosylation3531N-linked (GlcNAc...); by host Potential

Experimental info

Sequence conflict911V → G in AAA66877. Ref.1
Sequence conflict911V → G in AAA47276. Ref.2
Sequence conflict1691S → F in AAA66877. Ref.1
Sequence conflict3841V → L in AAA47276. Ref.2
Sequence conflict4091L → W in AAA47242. Ref.4

Secondary structure

...................................... 470
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P04506 [UniParc].

Last modified November 1, 1990. Version 2.
Checksum: F4D18989AD54491C

FASTA47051,404
        10         20         30         40         50         60 
MDASLITEIR KIVLQLSVSS NGSQSKEIEE IKKQVQVNVD DIRAANIKLD GLGRQIADIS 

        70         80         90        100        110        120 
NSISTIESRL GEMDNRLVGI SSQVTQLSNS VSQNTQSISS LGDRINAVEP RVDSLDTVTS 

       130        140        150        160        170        180 
NLTGRTSTLE ADVGSLRTEL AALTTRVTTE VTRLDGLINS GQNSIGELST RLSNVETSMV 

       190        200        210        220        230        240 
TTAGRGLQKN GNTLNVIVGN GMWFNSSNQL QLDLSGQSKG VGFVGTGMVV KIDTNYFAYN 

       250        260        270        280        290        300 
SNGEITLVSQ INELPSRVST LESAKIDSVL PPLTVREASG VRTLSFGYDT SDFTIINSVL 

       310        320        330        340        350        360 
SLRSRLTLPT YRYPLELDTA NNRVQVADRF GMRTGTWTGQ LQYQHPQLSW RANVTLNLMK 

       370        380        390        400        410        420 
VDDWLVLSFS QMTTNSIMAD GKFVINFVSG LSSGWQTGDT EPSSTIDPLS TTFAAVQFLN 

       430        440        450        460        470 
NGQRIDAFRI MGVSEWTDGE LEIKNYGGTY TGHTQVYWAP WTIMYPCNVR 

« Hide

References

[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]"A plasmid-based reverse genetics system for animal double-stranded RNA viruses."
Kobayashi T., Antar A.A., Boehme K.W., Danthi P., Eby E.A., Guglielmi K.M., Holm G.H., Johnson E.M., Maginnis M.S., Naik S., Skelton W.B., Wetzel J.D., Wilson G.J., Chappell J.D., Dermody T.S.
Cell Host Microbe 1:147-157(2007) [PubMed] [Europe PMC] [Abstract]
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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
PIRHMXRH1. A04122.
HMXRL1. A34829.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
4GU3X-ray3.60A/B/C261-470[»]
4GU4X-ray3.50A/B/C261-470[»]
ProteinModelPortalP04506.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

Gene3D2.10.25.20. 1 hit.
2.60.90.20. 1 hit.
InterProIPR008982. Adenovirus_pIV-rel_att.
IPR009013. Attachment_protein_shaft_dom.
IPR027314. Sigma1_globular_dom.
IPR002592. Vir_attach_sigma1_reovir.
[Graphical view]
PfamPF01664. Reo_sigma1. 1 hit.
[Graphical view]
SUPFAMSSF49835. SSF49835. 1 hit.
ProtoNetSearch...

Entry information

Entry nameSIGM1_REOVL
AccessionPrimary (citable) accession number: P04506
Secondary accession number(s): A4ZY30, P07937
Entry history
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: November 1, 1990
Last modified: February 19, 2014
This is version 87 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references