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Protein

Gag polyprotein

Gene

gag

Organism
Simian immunodeficiency virus (isolate CPZ GAB1) (SIV-cpz) (Chimpanzee immunodeficiency virus)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Protein inferred from homologyi

Functioni

Matrix protein p17 targets Gag and Gag-Pol polyproteins to the plasma membrane via a multipartite membrane binding signal, that includes its myristoylated N-terminus. Also mediates nuclear localization of the preintegration complex. Implicated in the release from host cell mediated by Vpu (By similarity).By similarity
Capsid protein p24 forms the conical core of the virus that encapsulates the genomic RNA-nucleocapsid complex.By similarity
Nucleocapsid protein p7 encapsulates and protects viral dimeric unspliced (genomic) RNA. Binds these RNAs through its zinc fingers (By similarity).By similarity
p6-gag plays a role in budding of the assembled particle by interacting with the host class E VPS proteins TSG101 and PDCD6IP/AIP1.By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri400 – 417CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri421 – 438CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionRNA-binding, Viral nucleoprotein
Biological processHost-virus interaction, Viral budding, Viral budding via the host ESCRT complexes, Viral release from host cell
LigandMetal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Gag polyprotein
Alternative name(s):
Pr55Gag
Cleaved into the following 6 chains:
Gene namesi
Name:gag
OrganismiSimian immunodeficiency virus (isolate CPZ GAB1) (SIV-cpz) (Chimpanzee immunodeficiency virus)
Taxonomic identifieri402771 [NCBI]
Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusPrimate lentivirus group
Virus hostiPan (chimpanzees) [TaxID: 9596]
Proteomesi
  • UP000009153 Componenti: Genome

Subcellular locationi

Matrix protein p17 :
  • Virion Curated
  • Host nucleus By similarity
  • Host cytoplasm By similarity
  • Host cell membrane Curated; Lipid-anchor Curated
  • Note: Following virus entry, the nuclear localization signal (NLS) of the matrix protein participates with Vpr to the nuclear localization of the viral genome. During virus production, the nuclear export activity of the matrix protein counteracts the NLS to maintain the Gag and Gag-Pol polyproteins in the cytoplasm, thereby directing unspliced RNA to the plasma membrane (By similarity).By similarity

GO - Cellular componenti

Keywords - Cellular componenti

Capsid protein, Host cell membrane, Host cytoplasm, Host membrane, Host nucleus, Membrane, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved; by hostBy similarity
ChainiPRO_00003161502 – 508Gag polyproteinBy similarityAdd BLAST507
ChainiPRO_00000386442 – 140Matrix protein p17By similarityAdd BLAST139
ChainiPRO_0000038645141 – 371Capsid protein p24By similarityAdd BLAST231
PeptideiPRO_0000316151372 – 387Spacer peptide p2By similarityAdd BLAST16
ChainiPRO_0000038646388 – 442Nucleocapsid protein p7By similarityAdd BLAST55
PeptideiPRO_0000316152443 – 458Spacer peptide p1By similarityAdd BLAST16
ChainiPRO_0000316153459 – 508p6-gagBy similarityAdd BLAST50

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Lipidationi2N-myristoyl glycine; by hostBy similarity1

Post-translational modificationi

Capsid protein p24 is phosphorylated.By similarity
Specific enzymatic cleavages by the viral protease yield mature proteins. The polyprotein is cleaved during and after budding, this process is termed maturation (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei140 – 141Cleavage; by viral proteaseBy similarity2
Sitei371 – 372Cleavage; by viral proteaseBy similarity2
Sitei387 – 388Cleavage; by viral proteaseBy similarity2
Sitei442 – 443Cleavage; by viral proteaseBy similarity2
Sitei458 – 459Cleavage; by viral proteaseBy similarity2

Keywords - PTMi

Lipoprotein, Myristate, Phosphoprotein

Interactioni

Subunit structurei

Matrix protein p17 is a trimer. Interacts with gp120. p6-gag interacts with host TSG101 (By similarity).By similarity

Protein-protein interaction databases

ELMiP17282.

Structurei

3D structure databases

ProteinModelPortaliP17282.
SMRiP17282.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi16 – 22Nuclear export signalBy similarity7
Motifi26 – 32Nuclear localization signalBy similarity7
Motifi465 – 468PTAP/PSAP motif4
Motifi491 – 500LYPX(n)L motif10

Domaini

Late-budding domains (L domains) are short sequence motifs essential for viral particle budding. They recruit proteins of the host ESCRT machinery (Endosomal Sorting Complex Required for Transport) or ESCRT-associated proteins. p6-gag contains two L domains: a PTAP/PSAP motif, which interacts with the UEV domain of TSG101 and a LYPX(n)L motif which interacts with PDCD6IP/AIP1 (By similarity).By similarity

Sequence similaritiesi

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri400 – 417CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri421 – 438CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

OrthoDBiVOG09000135.

Family and domain databases

Gene3Di1.10.1200.30. 1 hit.
1.10.375.10. 1 hit.
4.10.60.10. 3 hits.
InterProiView protein in InterPro
IPR000721. Gag_p24.
IPR014817. Gag_p6.
IPR000071. Lentvrl_matrix_N.
IPR008916. Retrov_capsid_C.
IPR008919. Retrov_capsid_N.
IPR010999. Retrovr_matrix.
IPR001878. Znf_CCHC.
IPR036875. Znf_CCHC_sf.
PfamiView protein in Pfam
PF00540. Gag_p17. 1 hit.
PF00607. Gag_p24. 1 hit.
PF08705. Gag_p6. 1 hit.
PF00098. zf-CCHC. 2 hits.
PRINTSiPR00234. HIV1MATRIX.
SMARTiView protein in SMART
SM00343. ZnF_C2HC. 2 hits.
SUPFAMiSSF47353. SSF47353. 1 hit.
SSF47836. SSF47836. 1 hit.
SSF47943. SSF47943. 1 hit.
SSF57756. SSF57756. 1 hit.
PROSITEiView protein in PROSITE
PS50158. ZF_CCHC. 2 hits.

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by ribosomal frameshifting. AlignAdd to basket

Note: Translation results in the formation of the Gag polyprotein most of the time. Ribosomal frameshifting at the gag-pol genes boundary occurs at low frequency and produces the Gag-Pol polyprotein. This strategy of translation probably allows the virus to modulate the quantity of each viral protein. Maintenance of a correct Gag to Gag-Pol ratio is essential for RNA dimerization and viral infectivity.
Isoform Gag polyprotein (identifier: P17282-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MGARASVLTG GKLDRWEKVR LRPGGRKRYM MKHLVWASRE LERFACDPGL
60 70 80 90 100
MESKEGCTKL LQQLEPALKT GSEGLRSLFN TLAVLWCIHS DITVEDTQKA
110 120 130 140 150
LEQLKRHHGE QQSKTESNSG SREGGASQGA SASAGISGNY PLVQNAQGQM
160 170 180 190 200
VHQAISPRTL NAWVKVVEEK AFSPEVIPMF SALSEGALPQ DVNTMLNAVG
210 220 230 240 250
GHQGAMQVLK EVINEEAAEW DRLHPTHAGP IAPGQLREPR GSDIAGTTST
260 270 280 290 300
LQEQIGWTTA NPPIPVGDVY RRWVILGLNK VVRMYCPVSI LDIRQGPKEP
310 320 330 340 350
FRDYVDRFYK TLRAEQASQE VKNWMTDTLL VQNANPDCKQ ILKALGPGAT
360 370 380 390 400
LEEMMTACQG VGGPSHKARV LAEAMSMVQN QGRADVFFQK GQGAGPKRKI
410 420 430 440 450
KCFNCGKEGH LARNCKAPRR KGCWRCGQEG HQMKDCTGRQ VNFLGKGWPS
460 470 480 490 500
RSGRPGNFVQ NRTEPTAPPI ESYGYQEEEK SQEKKEGESS LYPPTSLKSL

FGSDPSSQ
Note: Produced by conventional translation.
Length:508
Mass (Da):55,963
Last modified:August 1, 1990 - v1
Checksum:i6FC992B9EB4CBB5D
GO
Isoform Gag-Pol polyprotein (identifier: P17283-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry P17283.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by -1 ribosomal frameshifting.
Length:1,384
Mass (Da):156,085
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X52154 Genomic RNA. Translation: CAA36401.1.
PIRiS09983. FOLJSI.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Similar proteinsi

Entry informationi

Entry nameiGAG_SIVCZ
AccessioniPrimary (citable) accession number: P17282
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: August 1, 1990
Last modified: November 22, 2017
This is version 104 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families