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Protein

Gag polyprotein

Gene

gag

Organism
Human T-cell leukemia virus 1 (strain Japan ATK-1 subtype A) (HTLV-1)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Gag polyprotein: The matrix domain targets Gag, Gag-Pro and Gag-Pro-Pol polyproteins to the plasma membrane via a multipartite membrane binding signal, that includes its myristoylated N-terminus.1 Publication
Matrix protein p19: Matrix protein.1 Publication
Capsid protein p24: Forms the spherical core of the virus that encapsulates the genomic RNA-nucleocapsid complex.Curated
Nucleocapsid protein p15-gag: Binds strongly to viral nucleic acids and promote their aggregation. Also destabilizes the nucleic acids duplexes via highly structured zinc-binding motifs.1 Publication

Miscellaneous

HTLV-1 lineages are divided in four clades, A (Cosmopolitan), B (Central African group), C (Melanesian group) and D (New Central African group).Curated

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri355 – 372CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri378 – 395CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionViral nucleoprotein
Biological processHost-virus interaction
LigandMetal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Gag polyprotein
Alternative name(s):
Pr53Gag
Cleaved into the following 3 chains:
Matrix protein p19
Short name:
MA
Capsid protein p24
Short name:
CA
Gene namesi
Name:gag
OrganismiHuman T-cell leukemia virus 1 (strain Japan ATK-1 subtype A) (HTLV-1)
Taxonomic identifieri11926 [NCBI]
Taxonomic lineageiVirusesOrterviralesRetroviridaeOrthoretrovirinaeDeltaretrovirus
Virus hostiHomo sapiens (Human) [TaxID: 9606]
Proteomesi
  • UP000007683 Componenti: Genome

Subcellular locationi

Matrix protein p19 :

GO - Cellular componenti

Keywords - Cellular componenti

Capsid protein, Virion

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi2G → A: Complete loss of myristoylation the polyprotein. The concomitent loss of binding to the host cell membrane impairs the formation of viral particles. 1 Publication1
Mutagenesisi61C → S: Complete loss of homodimerization of matrix protein p19. 1 Publication1
Mutagenesisi105S → A: 70% loss of viral particle release. 1 Publication1
Mutagenesisi118 – 120PPP → AAA: Complete loss of interaction with human NEDD4. 1 Publication3
Mutagenesisi124 – 127PTAP → ATAA: Complete loss of interaction with human TSG101. 1 Publication4

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved; by hostSequence analysis
ChainiPRO_00002597712 – 429Gag polyproteinAdd BLAST428
ChainiPRO_00000388112 – 130Matrix protein p19Add BLAST129
ChainiPRO_0000038812131 – 344Capsid protein p24Add BLAST214
ChainiPRO_0000038813345 – 429Nucleocapsid protein p15-gagAdd BLAST85

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Lipidationi2N-myristoyl glycine; by hostSequence analysis2 Publications1
Disulfide bondi61Interchain1 Publication
Modified residuei105Phosphoserine; by host MAPK11 Publication1

Post-translational modificationi

Gag polyprotein: Specific enzymatic cleavages by the viral protease yield mature proteins. The polyprotein is cleaved during and after budding, this process is termed maturation.2 Publications
Matrix protein p19: Phosphorylation of the matrix protein p19 by MAPK1 seems to play a role in budding.1 Publication
Gag polyprotein: Ubiquitinated by host NEDD4.1 Publication
Gag polyprotein: Myristoylated. Myristoylation of the matrix (MA) domain mediates the transport and binding of Gag polyproteins to the host plasma membrane and is required for the assembly of viral particles.2 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei130 – 131Cleavage; by viral protease1 Publication2
Sitei344 – 345Cleavage; by viral protease1 Publication2

Keywords - PTMi

Disulfide bond, Lipoprotein, Myristate, Phosphoprotein, Ubl conjugation

PTM databases

iPTMnetiP03345

Interactioni

Subunit structurei

Gag polyprotein: Homodimer; the homodimers are part of the immature particles (PubMed:15476809). Gag polyprotein: Interacts with human TSG101 and NEDD4; these interactions are essential for budding and release of viral particles (PubMed:14581525, PubMed:15126635). Matrix protein p19: Homodimer; further assembles as homohexamers (PubMed:15476809).3 Publications

Protein-protein interaction databases

ELMiP03345

Structurei

Secondary structure

1429
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP03345
SMRiP03345
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP03345

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi118 – 121PPXY motif1 Publication4
Motifi124 – 127PTAP/PSAP motif1 Publication4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi95 – 144Pro-richPROSITE-ProRule annotationAdd BLAST50

Domaini

Gag polyprotein: Late-budding domains (L domains) are short sequence motifs essential for viral particle release. They can occur individually or in close proximity within structural proteins. They interacts with sorting cellular proteins of the multivesicular body (MVB) pathway. Most of these proteins are class E vacuolar protein sorting factors belonging to ESCRT-I, ESCRT-II or ESCRT-III complexes. Matrix protein p19 contains two L domains: a PTAP/PSAP motif which interacts with the UEV domain of TSG101, and a PPXY motif which binds to the WW domains of the ubiquitin ligase NEDD4.2 Publications
Capsid protein p24: The capsid protein N-terminus seems to be involved in Gag-Gag interactions.1 Publication
Nucleocapsid protein p15-gag: The C-terminus is acidic.1 Publication

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri355 – 372CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri378 – 395CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

OrthoDBiVOG09000057

Family and domain databases

Gene3Di1.10.1200.30, 1 hit
1.10.185.10, 1 hit
1.10.375.10, 1 hit
InterProiView protein in InterPro
IPR003139 D_retro_matrix
IPR036989 D_retro_matrix_sf
IPR000721 Gag_p24
IPR008916 Retrov_capsid_C
IPR008919 Retrov_capsid_N
IPR010999 Retrovr_matrix
IPR001878 Znf_CCHC
IPR036875 Znf_CCHC_sf
PfamiView protein in Pfam
PF02228 Gag_p19, 1 hit
PF00607 Gag_p24, 1 hit
PF00098 zf-CCHC, 1 hit
SMARTiView protein in SMART
SM00343 ZnF_C2HC, 2 hits
SUPFAMiSSF47836 SSF47836, 1 hit
SSF47943 SSF47943, 1 hit
SSF57756 SSF57756, 1 hit
PROSITEiView protein in PROSITE
PS50158 ZF_CCHC, 1 hit

Sequences (3)i

Sequence statusi: Complete.

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

This entry describes 3 isoformsi produced by ribosomal frameshifting. AlignAdd to basket
Note: This strategy of translation probably allows the virus to modulate the quantity of each viral protein.Curated
Isoform Gag polyprotein (identifier: P03345-1) [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
MGQIFSRSAS PIPRPPRGLA AHHWLNFLQA AYRLEPGPSS YDFHQLKKFL
60 70 80 90 100
KIALETPARI CPINYSLLAS LLPKGYPGRV NEILHILIQT QAQIPSRPAP
110 120 130 140 150
PPPSSPTHDP PDSDPQIPPP YVEPTAPQVL PVMHPHGAPP NHRPWQMKDL
160 170 180 190 200
QAIKQEVSQA APGSPQFMQT IRLAVQQFDP TAKDLQDLLQ YLCSSLVASL
210 220 230 240 250
HHQQLDSLIS EAETRGITGY NPLAGPLRVQ ANNPQQQGLR REYQQLWLAA
260 270 280 290 300
FAALPGSAKD PSWASILQGL EEPYHAFVER LNIALDNGLP EGTPKDPILR
310 320 330 340 350
SLAYSNANKE CQKLLQARGH TNSPLGDMLR ACQTWTPKDK TKVLVVQPKK
360 370 380 390 400
PPPNQPCFRC GKAGHWSRDC TQPRPPPGPC PLCQDPTHWK RDCPRLKPTI
410 420
PEPEPEEDAL LLDLPADIPH PKNSIGGEV
Note: Produced by conventional translation.1 Publication
Length:429
Mass (Da):47,496
Last modified:January 23, 2007 - v3
Checksum:i03FFD4E5A4500284
GO
Isoform Gag-Pro polyprotein (identifier: P10274-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry P10274.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by -1 ribosomal frameshifting at the gag-pro genes boundary.1 Publication
Length:651
Mass (Da):71,558
GO
Isoform Gag-Pro-Pol polyprotein (identifier: P03362-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry P03362.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by -1 ribosomal frameshiftings at the gag-pro and gag-pol genes boundaries.1 Publication
Length:1,462
Mass (Da):162,512
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti416A → T AA sequence (PubMed:6313426).Curated1
Sequence conflicti424S → F in AAA96672 (PubMed:6304725).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02029 Genomic DNA Translation: AAA96672.1
M13810 Genomic RNA Translation: AAA46205.1
PIRiB93954 FOLJGH

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02029 Genomic DNA Translation: AAA96672.1
M13810 Genomic RNA Translation: AAA46205.1
PIRiB93954 FOLJGH

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1QRJNMR-A146-344[»]
ProteinModelPortaliP03345
SMRiP03345
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

ELMiP03345

PTM databases

iPTMnetiP03345

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

OrthoDBiVOG09000057

Miscellaneous databases

EvolutionaryTraceiP03345

Family and domain databases

Gene3Di1.10.1200.30, 1 hit
1.10.185.10, 1 hit
1.10.375.10, 1 hit
InterProiView protein in InterPro
IPR003139 D_retro_matrix
IPR036989 D_retro_matrix_sf
IPR000721 Gag_p24
IPR008916 Retrov_capsid_C
IPR008919 Retrov_capsid_N
IPR010999 Retrovr_matrix
IPR001878 Znf_CCHC
IPR036875 Znf_CCHC_sf
PfamiView protein in Pfam
PF02228 Gag_p19, 1 hit
PF00607 Gag_p24, 1 hit
PF00098 zf-CCHC, 1 hit
SMARTiView protein in SMART
SM00343 ZnF_C2HC, 2 hits
SUPFAMiSSF47836 SSF47836, 1 hit
SSF47943 SSF47943, 1 hit
SSF57756 SSF57756, 1 hit
PROSITEiView protein in PROSITE
PS50158 ZF_CCHC, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiGAG_HTL1A
AccessioniPrimary (citable) accession number: P03345
Secondary accession number(s): Q85589
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: January 23, 2007
Last modified: June 20, 2018
This is version 125 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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Main funding by: National Institutes of Health

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