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Q8JNB1 (VP4_ROT46) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 63. 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 (isolate Pig/Venezuela/A46/1985 G5-P13[13]-Ix-Rx-Cx-Mx-Ax-Nx-Tx-Ex-Hx) (RV-A)
Taxonomic identifier578841 [NCBI]
Taxonomic lineageVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
Virus hostSus scrofa (Pig) [TaxID: 9823]

Protein attributes

Sequence length778 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 – 778778Outer capsid protein VP4
PRO_0000368128
Chain1 – 233233Outer capsid protein VP8*
PRO_0000368129
Chain250 – 778529Outer capsid protein VP5*
PRO_0000368130

Regions

Region250 – 482233Antigen domain By similarity
Region391 – 41121Hydrophobic; possible role in virus entry into host cell Potential
Coiled coil486 – 52035 Potential
Compositional bias562 – 61857Ser-rich

Sites

Site233 – 2342Cleavage By similarity
Site249 – 2502Cleavage By similarity

Amino acid modifications

Glycosylation561N-linked (GlcNAc...); by host Potential
Glycosylation1271N-linked (GlcNAc...); by host Potential
Glycosylation1321N-linked (GlcNAc...); by host Potential
Glycosylation1491N-linked (GlcNAc...); by host Potential
Glycosylation1951N-linked (GlcNAc...); by host Potential
Glycosylation3271N-linked (GlcNAc...); by host Potential
Disulfide bond320 ↔ 382 Potential

Sequences

Sequence LengthMass (Da)Tools
Q8JNB1 [UniParc].

Last modified October 1, 2002. Version 1.
Checksum: DE7766B94A422BB9

FASTA77887,232
        10         20         30         40         50         60 
MASLIYRQLL TNSYTTDLSD EIEEIGSSKS QDVTINPGPF AQTGYAPVDW GLGETNDSTT 

        70         80         90        100        110        120 
VAPVLDGPYQ PITFTPPIEY WALFAPNDKG VVAELTNNAD MWLVIILVEP NVPQELRLYT 

       130        140        150        160        170        180 
LFGQQVNLTI ENTSQTKWKF IDFRKRSQND TYILENALLS ETKLQAAMKY GGKLFTFTGD 

       190        200        210        220        230        240 
TPNAAPQEWG YTTNNYSAIS IKSLCDFYIV PRLPRETCRN YINQGLPPMQ NTRNVVSVAL 

       250        260        270        280        290        300 
SARDVISQRV SINEDIVVSK ASLWKEMQYN RDITIRFKFA NQIIKSGGLG YKWSEISFKP 

       310        320        330        340        350        360 
ANYQYTYTRN GEEITAHTTC SVNGVNNFSY NGGSLPTDFV ISRYEVIKEN SYVYIDYWDD 

       370        380        390        400        410        420 
SQAFRNMVYV RSLAADLNSV TCSGGSYSFA LPLGNFPVMS GGAVSLHPSG VTLSTQFTDF 

       430        440        450        460        470        480 
VSLNSLRFRF RLAVEEPPFS ITRTRVSRLY GLPAVNPNNA KDFYEIAGRF SLISLIPPND 

       490        500        510        520        530        540 
DYQTPIMNSV TVRQDLERQL GELRNEFNAL SQQIAMSQLI DLALLPLDMF SMFSGIKGTI 

       550        560        570        580        590        600 
DIAKSMATNV MKKFRKSNLA NSVSALTESL SDAASSISRR STIRTIGSSA SAWTEVSTAV 

       610        620        630        640        650        660 
IDTTTATNSI STQTATITKR LRLKEMAIQT DGMNFDDISA AVLKTKIDKS TQIAPNTLPD 

       670        680        690        700        710        720 
IVTEASEKFI PNRAYRVMDN DEVFEAGTDG KFFAYRVETF EEIPFDVQKF ADLITDSPVI 

       730        740        750        760        770 
SAIIDFKTLK NLNDNYGITK QQAYNLLRSD PRVLREFINQ ENPIIRNRIE NLIMQCRL 

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References

[1]"A novel type of VP4 carried by a porcine rotavirus strain."
Liprandi F., Gerder M., Bastidas Z., Lopez J.A., Pujol F.H., Ludert J.E., Joelsson D.B., Ciarlet M.
Virology 315:373-380(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AY050274 mRNA. Translation: AAL11030.1.

3D structure databases

ProteinModelPortalQ8JNB1.
SMRQ8JNB1. Positions 65-226, 255-524.
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_ROT46
AccessionPrimary (citable) accession number: Q8JNB1
Entry history
Integrated into UniProtKB/Swiss-Prot: April 14, 2009
Last sequence update: October 1, 2002
Last modified: February 19, 2014
This is version 63 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