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P25174

- VP4_ROTPY

UniProt

P25174 - VP4_ROTPY

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Protein

Outer capsid protein VP4

Gene
N/A
Organism
Rotavirus A (strain Pig/Mexico/YM/1983 G11-P9[7]-I5-R1-C1-M1-A8-N1-T1-E1-H1) (RV-A)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi

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).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).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).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei231 – 2322CleavageBy similarity
Sitei247 – 2482CleavageBy 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 Pig/Mexico/YM/1983 G11-P9[7]-I5-R1-C1-M1-A8-N1-T1-E1-H1) (RV-A)
Taxonomic identifieri10919 [NCBI]
Taxonomic lineageiVirusesdsRNA virusesReoviridaeSedoreovirinaeRotavirus
Virus hostiSus scrofa (Pig) [TaxID: 9823]

Subcellular locationi

Chain Outer capsid protein VP4 : Virion By similarity. Host rough endoplasmic reticulum Curated
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).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 endoplasmic reticulum Source: UniProtKB-KW
  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 – 776776Outer capsid protein VP4PRO_0000041105Add
BLAST
Chaini1 – 231231Outer capsid protein VP8*Sequence AnalysisPRO_0000041106Add
BLAST
Chaini248 – 776529Outer capsid protein VP5*Sequence AnalysisPRO_0000041107Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi17 – 171N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi32 – 321N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi56 – 561N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi97 – 971N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi116 – 1161N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi132 – 1321N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi151 – 1511N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi178 – 1781N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi183 – 1831N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi198 – 1981N-linked (GlcNAc...); by hostSequence Analysis
Disulfide bondi318 ↔ 380Sequence Analysis
Glycosylationi325 – 3251N-linked (GlcNAc...); by hostSequence Analysis
Glycosylationi670 – 6701N-linked (GlcNAc...); by hostSequence Analysis

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).By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Interactioni

Subunit structurei

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).By similarityCurated

Structurei

3D structure databases

ProteinModelPortaliP25174.
SMRiP25174. Positions 64-224, 253-522.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni248 – 480233Antigen domainBy similarityAdd
BLAST
Regioni308 – 3103DGE motif; interaction with ITGA2/ITGB1 heterodimerBy similarity
Regioni389 – 40921Hydrophobic; possible role in virus entry into host cellSequence AnalysisAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili484 – 51835Sequence AnalysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi560 – 61657Ser-richAdd
BLAST

Sequence similaritiesi

Belongs to the rotavirus VP4 family.Curated

Keywords - Domaini

Coiled coil

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
InterProiIPR013320. ConA-like_dom.
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.

P25174 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MASLNYRQLL TNSYTVNLSD EIQEIGSAKA QNVTINPGPF AQTGYAPVNW
60 70 80 90 100
GAGETNDSTT VEPLLDGPYQ PTTFNPPTSY WVLLAPTVEG VIIQGTNNTD
110 120 130 140 150
RWLATILIEP NVQTTNRTYN LFGQQVTLSV DNTSQTQWKF IDVSKTTLTG
160 170 180 190 200
NYTQHGPLFS TPKLYAVMKF SGRIYTYNGT TPNATTGYYS TTNYDTVNMT
210 220 230 240 250
SFCDFYIIPR NQEEKCTEYI NHGLPPIQNT RNVVPVSLSA REIVHTRAQV
260 270 280 290 300
NEDIVVSKTS LWKEMQYNRD ITIRFKFDRT IIKAGGLGYK WSEISFKPIT
310 320 330 340 350
YQYTYTRDGE QITAHTTCSV NGVNNFSYNG GSLPTDFAIS RYEVIKENSF
360 370 380 390 400
VYIDYWDDSQ AFRNMVYVRS LAANLNTVTC TGGSYSFALP LGNYPVMTGG
410 420 430 440 450
TVTLHPAGVT LSTQFTDFVS LNSLRFRFRL TVGEPSFSIT RTRVSRLYGL
460 470 480 490 500
PAANPNNQRE HYEISGRLSL ISLVPSNDDY QTPIMNSVTV RQDLERQLGE
510 520 530 540 550
LRDEFNSLSQ QIAMSQLIDL ALLPLDMFSM FSGIKSTIDA AKSMATNVMK
560 570 580 590 600
RFKRSNLASS VSTLTDAMSD AASSISRSSS IRSIGSSASA WTEVSTSITD
610 620 630 640 650
ISTTVDTVST QTATIAKRLR LKEIATQTDG MNFDDISAAV LKTKIDKSAQ
660 670 680 690 700
ITPSTLPEIV TEASEKFIPN RTYRVINNDE VFEAGMDGKF FAYRVDTFDE
710 720 730 740 750
IPFDVQKFAD LVTDSPVISA IIDLKTLKNL KDNYGISKQQ AFDLLRSDPK
760 770
VLREFINQNN PIIRNRIENL IMQCRL
Length:776
Mass (Da):86,773
Last modified:May 1, 1992 - v1
Checksum:iB6A6C9CF81541014
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M63231 Genomic RNA. Translation: AAA47100.1.
PIRiA40342. VPXRYM.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M63231 Genomic RNA. Translation: AAA47100.1 .
PIRi A40342. VPXRYM.

3D structure databases

ProteinModelPortali P25174.
SMRi P25174. Positions 64-224, 253-522.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Family and domain databases

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

Publicationsi

  1. "Rotavirus YM gene 4: analysis of its deduced amino acid sequence and prediction of the secondary structure of the VP4 protein."
    Lopez S., Lopez I.V., Romero P., Mendez E., Soberon X., Arias C.F.
    J. Virol. 65:3738-3745(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC RNA].

Entry informationi

Entry nameiVP4_ROTPY
AccessioniPrimary (citable) accession number: P25174
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: October 29, 2014
This is version 82 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-dependent in cell culture conditions.By similarity

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3