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P39033

- VP4_ROTH3

UniProt

P39033 - VP4_ROTH3

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Protein
Outer capsid protein VP4
Gene
N/A
Organism
Rotavirus A (strain Human/Japan/AU-1/1982 G3-P3[9]-I3-R3-C3-M3-A3-N3-T3-E3-H3) (RV-A)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at transcript leveli

Functioni

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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei231 – 2322Cleavage By similarity
Sitei247 – 2482Cleavage By similarity

GO - Biological processi

  1. permeabilization of host organelle membrane involved in viral entry into host cell Source: UniProtKB-KW
  2. 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, Viral penetration into host cytoplasm, Viral penetration via permeabilization of host membrane, Virus entry into host cell

Names & Taxonomyi

Protein namesi
Recommended name:
Outer capsid protein VP4
Alternative name(s):
Hemagglutinin
Cleaved into the following 2 chains:
OrganismiRotavirus A (strain Human/Japan/AU-1/1982 G3-P3[9]-I3-R3-C3-M3-A3-N3-T3-E3-H3) (RV-A)
Taxonomic identifieri39013 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirusRotavirus A
Virus hostiHomo sapiens (Human) [TaxID: 9606]
ProteomesiUP000001454: Genome

Subcellular locationi

Chain Outer capsid protein VP4 : Virion By similarity. Host rough endoplasmic reticulum Reviewed prediction
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.
Chain Outer capsid protein VP8* : Virion
Note: Outer capsid protein By similarity.
Chain Outer capsid protein VP5* : Virion
Note: Outer capsid protein By similarity.

GO - Cellular componenti

  1. host cell rough endoplasmic reticulum Source: UniProtKB-SubCell
  2. viral outer capsid Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Host endoplasmic reticulum, Outer capsid protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 775775Outer capsid protein VP4
PRO_0000041045Add
BLAST
Chaini1 – 231231Outer capsid protein VP8* Reviewed prediction
PRO_0000041046Add
BLAST
Chaini248 – 775528Outer capsid protein VP5* Reviewed prediction
PRO_0000041047Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi17 – 171N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi32 – 321N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi97 – 971N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi132 – 1321N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi183 – 1831N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi198 – 1981N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi237 – 2371N-linked (GlcNAc...); by host Reviewed prediction
Disulfide bondi318 ↔ 380 Reviewed prediction
Glycosylationi567 – 5671N-linked (GlcNAc...); by host Reviewed prediction
Glycosylationi613 – 6131N-linked (GlcNAc...); by host Reviewed prediction

Post-translational modificationi

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.

Keywords - PTMi

Disulfide bond, Glycoprotein

Interactioni

Subunit structurei

VP4 is a homotrimer Reviewed prediction. 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 Reviewed prediction. 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.

Structurei

3D structure databases

ProteinModelPortaliP39033.
SMRiP39033. Positions 65-224, 253-521.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni248 – 480233Antigen domain By similarity
Add
BLAST
Regioni308 – 3103DGE motif; interaction with ITGA2/ITGB1 heterodimer By similarity
Regioni389 – 40921Hydrophobic; possible role in virus entry into host cell Reviewed prediction
Add
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili484 – 51835 Reviewed prediction
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi560 – 61556Ser-rich
Add
BLAST

Sequence similaritiesi

Belongs to the rotavirus VP4 family.

Keywords - Domaini

Coiled coil

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
InterProiIPR008985. ConA-like_lec_gl_sf.
IPR013320. ConA-like_subgrp.
IPR000416. Haemagglutinin_VP4.
[Graphical view]
PfamiPF00426. VP4_haemagglut. 1 hit.
[Graphical view]
SUPFAMiSSF49899. SSF49899. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P39033-1 [UniParc]FASTAAdd to Basket

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MASLIYRQLL SNSYVTNISD EVNEIGTKKT TNVTVNPGPF AQTGYAPVDW    50
GHGELPDSTL VQPTLDGPYQ PTSLNLPVDY WMLIAPTREG KVAEGTNTTD 100
RWFACVLVEP NVQNTQRQYV LDGQNVQLQV SNDSSTSWKF ILFIKLTPDG 150
TYTQYSTLST PHKLCAWMKR DNRVYWYQGA TPNASESYYL TINNDNSNVS 200
SDAEFYLIPQ SQTAMCTQYI NNGLPPIQNT RNIVPVNITS RQIKDIRAQI 250
NEDIVISKTS LWKEMQYNRD IIIRFKFANS IIKSGGLGYK WSEISFKPMN 300
YQYTYTRDGE EVTAHTTCSV NGVNDFNYNG GTLPTDFAIS RFEVIKENSY 350
VYVDYWDDSQ AFRNMVYVRS LAANLNDVVC SGGSYSFALP VGNHPVMSGG 400
AVTLTSAGVT LSTQYTDYVS LNSLRFRFRL AVSEPSFSIS RTRMSGIYGL 450
PAVNPNNNAE YYEIAGRFSL ISLVLTNDDY QTPIANSVTV RQDLERQLGE 500
LREEFNSLSQ EIAVSQLIDL ATLPLDMFSM FSGIKSTVEA VKSMTTNVMK 550
RFKTSSLANA ISDLTSNMSE AASSVRLTSV RSVGTVTLPR ARVSLQVSDD 600
LRSMQDVSTQ VSNVSRNLRL KEFTTQTDTL SFDDISAAVL KTKLDKSTQI 650
SQQTMPDIIA ESSEKFIPKR SYRIVDEDTA FETGIDGTFY AYKVDTFNEI 700
PFDMERFNKL VTDSPVLSAI IDFKTLKNLN DNYGITKKQA MELLHSNPKT 750
LKEFINNNNP IIRNRIENLI SQCRL 775
Length:775
Mass (Da):87,093
Last modified:February 1, 1995 - v1
Checksum:i4148D0C91A89B18A
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
D10970 mRNA. Translation: BAA01747.1.
PIRiJQ1638.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
D10970 mRNA. Translation: BAA01747.1 .
PIRi JQ1638.

3D structure databases

ProteinModelPortali P39033.
SMRi P39033. Positions 65-224, 253-521.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

Gene3Di 2.60.120.200. 1 hit.
InterProi IPR008985. ConA-like_lec_gl_sf.
IPR013320. ConA-like_subgrp.
IPR000416. Haemagglutinin_VP4.
[Graphical view ]
Pfami PF00426. VP4_haemagglut. 1 hit.
[Graphical view ]
SUPFAMi SSF49899. SSF49899. 1 hit.
ProtoNeti Search...

Publicationsi

  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].

Entry informationi

Entry nameiVP4_ROTH3
AccessioniPrimary (citable) accession number: P39033
Entry historyi
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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

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.

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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