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P39033 (VP4_ROTH3) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 78. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Outer capsid protein VP4
Alternative name(s):
Hemagglutinin

Cleaved into the following 2 chains:

  1. Outer capsid protein VP8*
  2. Outer capsid protein VP5*
OrganismRotavirus A (strain Human/Japan/AU-1/1982 G3-P3[9]-I3-R3-C3-M3-A3-N3-T3-E3-H3) (RV-A) [Complete proteome]
Taxonomic identifier39013 [NCBI]
Taxonomic lineageVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
Virus hostHomo sapiens (Human) [TaxID: 9606]

Protein attributes

Sequence length775 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Spike-forming protein that mediates virion attachment to the host epithelial cell receptors and plays a major role in cell penetration, determination of host range restriction and virulence. Rotavirus entry into the host cell probably involves multiple sequential contacts between the outer capsid proteins VP4 and VP7, and the cell receptors. According to the considered strain, VP4 seems to essentially target sialic acid and/or the integrin heterodimer ITGA2/ITGB1 By similarity.

Outer capsid protein VP5*: forms the spike "foot" and "body". Acts as a membrane permeabilization protein that mediates release of viral particles from endosomal compartments into the cytoplasm. In integrin-dependent strains, VP5* targets the integrin heterodimer ITGA2/ITGB1 for cell attachment By similarity.

VP8* forms the head of the spikes. It is the viral hemagglutinin and an important target of neutralizing antibodies. In sialic acid-dependent strains, VP8* binds to host cell sialic acid, most probably a ganglioside, providing the initial contact By similarity.

Subunit structure

VP4 is a homotrimer Potential. VP4 adopts a dimeric appearance above the capsid surface, while forming a trimeric base anchored inside the capsid layer. Only hints of the third molecule are observed above the capsid surface. It probably performs a series of molecular rearrangements during viral entry. Prior to trypsin cleavage, it is flexible. The priming trypsin cleavage triggers its rearrangement into rigid spikes with approximate two-fold symmetry of their protruding parts. After an unknown second triggering event, cleaved VP4 may undergo another rearrangement, in which two VP5* subunits fold back on themselves and join a third subunit to form a tightly associated trimer, shaped like a folded umbrella. VP5* is a homotrimer Potential. The trimer is coiled-coil stabilized by its C-terminus, however, its N-terminus, known as antigen domain or "body", seems to be flexible allowing it to self-associate either as a dimer or a trimer. The two- to three-fold reorganization and fold-back of VP5* may be linked to membrane penetration, by exposing its hydrophobic region. Interacts with host ITGA2 (via ITAG2 I-domain); this interaction occurs when ITGA2 is part of the integrin heterodimer ITGA2/ITGB1. Interacts with host integrin heterodimer ITGA4/ITGB1 and ITGA4/ITGB7 By similarity.

Subcellular location

Outer capsid protein VP4: Virion By similarity. Host rough endoplasmic reticulum Potential. Note: Immature double-layered particles assembled in the cytoplasm bud across the membrane of the endoplasmic reticulum, acquiring during this process a transient lipid membrane that is modified with the ER resident viral glycoproteins NSP4 and VP7; these enveloped particles also contain VP4. As the particles move towards the interior of the ER cisternae, the transient lipid membrane and the non-structural protein NSP4 are lost, while the virus surface proteins VP4 and VP7 rearrange to form the outermost virus protein layer, yielding mature infectious triple-layered particles By similarity.

Outer capsid protein VP8*: Virion. Note: Outer capsid protein By similarity.

Outer capsid protein VP5*: Virion. Note: Outer capsid protein By similarity.

Post-translational modification

Proteolytic cleavage by trypsin results in activation of VP4 functions and greatly increases infectivity. The penetration into the host cell is dependent on trypsin treatment of VP4. It produces two peptides, VP5* and VP8* that remain associated with the virion By similarity.

Miscellaneous

In group A rotaviruses, VP4 defines the P serotype.

This strain has been shown to be sialic acid-independent in cell culture conditions By similarity.

Sequence similarities

Belongs to the rotavirus VP4 family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 775775Outer capsid protein VP4
PRO_0000041045
Chain1 – 231231Outer capsid protein VP8* Potential
PRO_0000041046
Chain248 – 775528Outer capsid protein VP5* Potential
PRO_0000041047

Regions

Region248 – 480233Antigen domain By similarity
Region308 – 3103DGE motif; interaction with ITGA2/ITGB1 heterodimer By similarity
Region389 – 40921Hydrophobic; possible role in virus entry into host cell Potential
Coiled coil484 – 51835 Potential
Compositional bias560 – 61556Ser-rich

Sites

Site231 – 2322Cleavage By similarity
Site247 – 2482Cleavage By similarity

Amino acid modifications

Glycosylation171N-linked (GlcNAc...); by host Potential
Glycosylation321N-linked (GlcNAc...); by host Potential
Glycosylation971N-linked (GlcNAc...); by host Potential
Glycosylation1321N-linked (GlcNAc...); by host Potential
Glycosylation1831N-linked (GlcNAc...); by host Potential
Glycosylation1981N-linked (GlcNAc...); by host Potential
Glycosylation2371N-linked (GlcNAc...); by host Potential
Glycosylation5671N-linked (GlcNAc...); by host Potential
Glycosylation6131N-linked (GlcNAc...); by host Potential
Disulfide bond318 ↔ 380 Potential

Sequences

Sequence LengthMass (Da)Tools
P39033 [UniParc].

Last modified February 1, 1995. Version 1.
Checksum: 4148D0C91A89B18A

FASTA77587,093
        10         20         30         40         50         60 
MASLIYRQLL SNSYVTNISD EVNEIGTKKT TNVTVNPGPF AQTGYAPVDW GHGELPDSTL 

        70         80         90        100        110        120 
VQPTLDGPYQ PTSLNLPVDY WMLIAPTREG KVAEGTNTTD RWFACVLVEP NVQNTQRQYV 

       130        140        150        160        170        180 
LDGQNVQLQV SNDSSTSWKF ILFIKLTPDG TYTQYSTLST PHKLCAWMKR DNRVYWYQGA 

       190        200        210        220        230        240 
TPNASESYYL TINNDNSNVS SDAEFYLIPQ SQTAMCTQYI NNGLPPIQNT RNIVPVNITS 

       250        260        270        280        290        300 
RQIKDIRAQI NEDIVISKTS LWKEMQYNRD IIIRFKFANS IIKSGGLGYK WSEISFKPMN 

       310        320        330        340        350        360 
YQYTYTRDGE EVTAHTTCSV NGVNDFNYNG GTLPTDFAIS RFEVIKENSY VYVDYWDDSQ 

       370        380        390        400        410        420 
AFRNMVYVRS LAANLNDVVC SGGSYSFALP VGNHPVMSGG AVTLTSAGVT LSTQYTDYVS 

       430        440        450        460        470        480 
LNSLRFRFRL AVSEPSFSIS RTRMSGIYGL PAVNPNNNAE YYEIAGRFSL ISLVLTNDDY 

       490        500        510        520        530        540 
QTPIANSVTV RQDLERQLGE LREEFNSLSQ EIAVSQLIDL ATLPLDMFSM FSGIKSTVEA 

       550        560        570        580        590        600 
VKSMTTNVMK RFKTSSLANA ISDLTSNMSE AASSVRLTSV RSVGTVTLPR ARVSLQVSDD 

       610        620        630        640        650        660 
LRSMQDVSTQ VSNVSRNLRL KEFTTQTDTL SFDDISAAVL KTKLDKSTQI SQQTMPDIIA 

       670        680        690        700        710        720 
ESSEKFIPKR SYRIVDEDTA FETGIDGTFY AYKVDTFNEI PFDMERFNKL VTDSPVLSAI 

       730        740        750        760        770 
IDFKTLKNLN DNYGITKKQA MELLHSNPKT LKEFINNNNP IIRNRIENLI SQCRL 

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References

[1]"A VP4 sequence highly conserved in human rotavirus strain AU-1 and feline rotavirus strain FRV-1."
Isegawa Y., Nakagomi O., Nakagomi T., Ueda S.
J. Gen. Virol. 73:1939-1946(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
D10970 mRNA. Translation: BAA01747.1.
PIRJQ1638.

3D structure databases

ProteinModelPortalP39033.
SMRP39033. Positions 65-224, 253-521.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

Gene3D2.60.120.200. 1 hit.
InterProIPR008985. ConA-like_lec_gl_sf.
IPR013320. ConA-like_subgrp.
IPR000416. Haemagglutinin_VP4.
[Graphical view]
PfamPF00426. VP4_haemagglut. 1 hit.
[Graphical view]
SUPFAMSSF49899. SSF49899. 1 hit.
ProtoNetSearch...

Entry information

Entry nameVP4_ROTH3
AccessionPrimary (citable) accession number: P39033
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: February 19, 2014
This is version 78 of the entry and version 1 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