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Protein

Gag polyprotein

Gene

gag

Organism
Jembrana disease virus (JDV)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Matrix protein p16 forms the outer shell of the core of the virus, lining the inner surface of the viral membrane.By similarity
Capsid protein p26 forms the conical core of the virus that encapsulates the genomic RNA-nucleocapsid complex.By similarity
Nucleocapsid protein p13 encapsulates and protects viral dimeric unspliced (genomic) RNA. Binds these RNAs through its zinc fingers (By similarity).By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri368 – 385CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri386 – 403CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Host-virus interaction, Viral budding, Viral budding via the host ESCRT complexes, Virion maturation, Virus exit from host cell

Keywords - Ligandi

Metal-binding, Viral nucleoprotein, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Gag polyprotein
Alternative name(s):
Pr53Gag
Cleaved into the following 3 chains:
Matrix protein p16
Short name:
MA
Capsid protein p26
Short name:
CA
Gene namesi
Name:gag
OrganismiJembrana disease virus (JDV)
Taxonomic identifieri36370 [NCBI]
Taxonomic lineageiVirusesRetro-transcribing virusesRetroviridaeOrthoretrovirinaeLentivirusBovine lentivirus group
Virus hostiBos javanicus (Wild banteng) [TaxID: 9906]

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Capsid protein, Viral matrix protein, Virion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002723491 – 436Gag polyproteinAdd BLAST436
ChainiPRO_00002723501 – 125Matrix protein p16Sequence analysisAdd BLAST125
ChainiPRO_0000272351126 – 344Capsid protein p26Sequence analysisAdd BLAST219
ChainiPRO_0000272352345 – 436Nucleocapsid protein p13Sequence analysisAdd BLAST92

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei125 – 126Cleavage; by viral proteaseSequence analysis2
Sitei344 – 345Cleavage; by viral proteaseSequence analysis2

Structurei

3D structure databases

ProteinModelPortaliQ82850.
SMRiQ82850.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi428 – 431PTAP/PSAP motif4

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. Nucleocapsid protein p13 contains one L domain: a PTAP/PSAP motif, which interacts with the UEV domain of TSG101 (By similarity).By similarity

Sequence similaritiesi

Contains 2 CCHC-type zinc fingers.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri368 – 385CCHC-type 1PROSITE-ProRule annotationAdd BLAST18
Zinc fingeri386 – 403CCHC-type 2PROSITE-ProRule annotationAdd BLAST18

Keywords - Domaini

Repeat, Zinc-finger

Family and domain databases

Gene3Di1.10.1200.30. 1 hit.
1.10.375.10. 1 hit.
4.10.60.10. 1 hit.
InterProiIPR000721. Gag_p24.
IPR008916. Retrov_capsid_C.
IPR008919. Retrov_capsid_N.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00607. Gag_p24. 1 hit.
PF00098. zf-CCHC. 2 hits.
[Graphical view]
SMARTiSM00343. ZnF_C2HC. 2 hits.
[Graphical view]
SUPFAMiSSF47353. SSF47353. 1 hit.
SSF47943. SSF47943. 1 hit.
SSF57756. SSF57756. 1 hit.
PROSITEiPS50158. ZF_CCHC. 2 hits.
[Graphical view]

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: This strategy of translation probably allows the virus to modulate the quantity of each viral protein.
Isoform Gag polyprotein (identifier: Q82850-1) [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
MKLSKLEKAL KKVRVTPQRD DTYTIGNVLW AIRMCRLMGL DCCIDEATAA
60 70 80 90 100
EVAILIGRFQ SLDLQDSPLK GKDEKAILTT LKVLWSLLAG HHPENSDMAE
110 120 130 140 150
KYWEAWTIRE RESQKEEEGE ITSIYPQLRK NFPAVSTSDG SPRYDPDLTK
160 170 180 190 200
QLKIWADATE KHGVDHHAVN ILGVITANLT QSEIRLLLQS TPQWRLDIQL
210 220 230 240 250
IESKLNAREH AHRVWKESHP EAPKTDEIIG KGLTAAEQAT LTTQECRDTY
260 270 280 290 300
RQWVLEAALE VAQGKHDRPG PINIHQGPKE PYPEFVNKLV TALEGMAAPE
310 320 330 340 350
TTKQYLLDHL SVDHANEDCR AVLLPLGPSA PMERKLEACR AVGSSKQKMQ
360 370 380 390 400
FLAEAFAAIN VKGDGEVQRC YGCGKPGHIR RDCKNQKCFK CGKPGHLQRN
410 420 430
CKSKNGRRSS APSGQRSGYH QEKTSVTPSA PPLVLD
Note: Produced by conventional translation.
Length:436
Mass (Da):48,785
Last modified:November 1, 1996 - v1
Checksum:iD57C822435006384
GO
Isoform Gag-Pol polyprotein (identifier: Q82851-1) [UniParc]FASTAAdd to basket
The sequence of this isoform can be found in the external entry Q82851.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Note: Produced by ribosomal frameshifting at the gag-pol genes boundary.
Length:1,432
Mass (Da):163,421
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U21603 Genomic RNA. Translation: AAA64388.1.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U21603 Genomic RNA. Translation: AAA64388.1.

3D structure databases

ProteinModelPortaliQ82850.
SMRiQ82850.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Family and domain databases

Gene3Di1.10.1200.30. 1 hit.
1.10.375.10. 1 hit.
4.10.60.10. 1 hit.
InterProiIPR000721. Gag_p24.
IPR008916. Retrov_capsid_C.
IPR008919. Retrov_capsid_N.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00607. Gag_p24. 1 hit.
PF00098. zf-CCHC. 2 hits.
[Graphical view]
SMARTiSM00343. ZnF_C2HC. 2 hits.
[Graphical view]
SUPFAMiSSF47353. SSF47353. 1 hit.
SSF47943. SSF47943. 1 hit.
SSF57756. SSF57756. 1 hit.
PROSITEiPS50158. ZF_CCHC. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiGAG_JEMBR
AccessioniPrimary (citable) accession number: Q82850
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 23, 2007
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programViral Protein Annotation Program

Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.