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P47099

- YJ12A_YEAST

UniProt

P47099 - YJ12A_YEAST

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Protein

Transposon Ty1-JR2 Gag polyprotein

Gene
TY1A-JR2, YJRWTy1-2 GAG, YJR028W, J1565
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at transcript leveli

Functioni

Capsid protein (CA) is the structural component of the virus-like particle (VLP), forming the shell that encapsulates the retrotransposons dimeric RNA genome. The particles are assembled from trimer-clustered units and there are holes in the capsid shells that allow for the diffusion of macromolecules. CA has also nucleocapsid-like chaperone activity, promoting primer tRNA(i)-Met annealing to the multipartite primer-binding site (PBS), dimerization of Ty1 RNA and initiation of reverse transcription By similarity.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei401 – 4022Cleavage; by Ty1 protease By similarity

GO - Molecular functioni

  1. RNA binding Source: SGD

GO - Biological processi

  1. transposition, RNA-mediated Source: SGD
Complete GO annotation...

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Transposon Ty1-JR2 Gag polyprotein
Alternative name(s):
Gag-p49
Transposon Ty1 protein A
Short name:
TY1A
Short name:
TYA
p58
Cleaved into the following 2 chains:
Capsid protein
Short name:
CA
Alternative name(s):
Gag-p45
p54
Gene namesi
Name:TY1A-JR2
Synonyms:YJRWTy1-2 GAG
Ordered Locus Names:YJR028W
ORF Names:J1565
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome X

Organism-specific databases

CYGDiYJR028w.
SGDiS000003789. YJR028W.

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. retrotransposon nucleocapsid Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 440440Transposon Ty1-JR2 Gag polyproteinPRO_0000203497Add
BLAST
Chaini1 – 401401Capsid protein By similarityPRO_0000279092Add
BLAST
Peptidei402 – 44039Gag-p4 By similarityPRO_0000279093Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei416 – 4161Phosphoserine By similarity

Keywords - PTMi

Phosphoprotein

Expressioni

Inductioni

Ty1-JR2 is a highly expressed element. Induced under amino acid starvation conditions by GCN4.1 Publication

Gene expression databases

GenevestigatoriP47099.

Interactioni

Subunit structurei

Homotrimer By similarity.

Protein-protein interaction databases

BioGridi33781. 6 interactions.
DIPiDIP-6395N.
IntActiP47099. 4 interactions.
MINTiMINT-543465.
STRINGi4932.YJR028W.

Structurei

3D structure databases

ProteinModelPortaliP47099.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni299 – 401103RNA-binding By similarityAdd
BLAST

Domaini

The C-terminal RNA-binding region of CA is sufficient for all its nucleocapsid-like chaperone activities By similarity.

Phylogenomic databases

GeneTreeiENSGT00710000106943.
HOGENOMiHOG000000740.
OrthoDBiEOG7XPZG1.

Family and domain databases

InterProiIPR015820. Retrotransposon_Ty1A_N.
[Graphical view]
PfamiPF01021. TYA. 1 hit.
[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. Align

Note: The Gag-Pol polyprotein is generated by a +1 ribosomal frameshift. The ratio of Gag:Gag-Pol varies between 20:1 and 5:1 (By similarity).

Isoform Transposon Ty1-JR2 Gag polyprotein (identifier: P47099-1) [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

MESQQLSQHS HISHGSACAS VTSKEVHTNQ DPLDVSASKT EECEKASTKA    50
NSQQTTTPAS SAVPENPHHA SPQTAQSHSP QNGPYPQQCM MTQNQANPSG 100
WSFYGHPSMI PYTPYQMSPM YFPPGPQSQF PQYPSSVGTP LSTPSPESGN 150
TFTDSSSADS DMTSTKKYVR PPPMLTSPND FPNWVKTYIK FLQNSNLGGI 200
IPTVNGKPVR QITDDELTFL YNTFQIFAPS QFLPTWVKDI LSVDYTDIMK 250
ILSKSIEKMQ SDTQEANDIV TLANLQYNGS TPADAFETKV TNIIDRLNNN 300
GIHINNKVAC QLIMRGLSGE YKFLRYTRHR HLNMTVAELF LDIHAIYEEQ 350
QGSRNSKPNY RRNPSDEKND SRSYTNTTKP KVIARNPQKT NNSKSKTARA 400
HNVSTSNNSP STDNDSISKS TTEPIQLNNK HDLHLRPETY 440

Note: Produced by conventional translation.

Length:440
Mass (Da):49,112
Last modified:February 1, 1996 - v1
Checksum:iC3E86CBF0840D716
GO
Isoform Transposon Ty1-JR2 Gag-Pol polyprotein (identifier: P47100-1) [UniParc]FASTAAdd to Basket

The sequence of this isoform can be found in the external entry P47100.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by +1 ribosomal frameshifting between codon Leu-435 and Gly-436 of the YJR028W ORF.

Length:1,755
Mass (Da):198,618
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X87297 Genomic DNA. Translation: CAA60722.1.
Z49528 Genomic DNA. Translation: CAA89555.1.
BK006943 Genomic DNA. Translation: DAA08818.1.
PIRiS57046.
RefSeqiNP_012563.1. NM_001181686.1. [P47099-1]

Genome annotation databases

EnsemblFungiiYJR028W; YJR028W; YJR028W. [P47099-1]
GeneIDi853485.
KEGGisce:YJR028W.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X87297 Genomic DNA. Translation: CAA60722.1 .
Z49528 Genomic DNA. Translation: CAA89555.1 .
BK006943 Genomic DNA. Translation: DAA08818.1 .
PIRi S57046.
RefSeqi NP_012563.1. NM_001181686.1. [P47099-1 ]

3D structure databases

ProteinModelPortali P47099.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 33781. 6 interactions.
DIPi DIP-6395N.
IntActi P47099. 4 interactions.
MINTi MINT-543465.
STRINGi 4932.YJR028W.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YJR028W ; YJR028W ; YJR028W . [P47099-1 ]
GeneIDi 853485.
KEGGi sce:YJR028W.

Organism-specific databases

CYGDi YJR028w.
SGDi S000003789. YJR028W.

Phylogenomic databases

GeneTreei ENSGT00710000106943.
HOGENOMi HOG000000740.
OrthoDBi EOG7XPZG1.

Miscellaneous databases

NextBioi 974104.

Gene expression databases

Genevestigatori P47099.

Family and domain databases

InterProi IPR015820. Retrotransposon_Ty1A_N.
[Graphical view ]
Pfami PF01021. TYA. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "The sequence of 24.3 kb from chromosome X reveals five complete open reading frames, all of which correspond to new genes, and a tandem insertion of a Ty1 transposon."
    Zagulski M., Babinska B., Gromadka R., Migdalski A., Rytka J., Sulicka J., Herbert C.J.
    Yeast 11:1179-1186(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X."
    Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K.
    , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L.
    EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. "Transposable elements and genome organization: a comprehensive survey of retrotransposons revealed by the complete Saccharomyces cerevisiae genome sequence."
    Kim J.M., Vanguri S., Boeke J.D., Gabriel A., Voytas D.F.
    Genome Res. 8:464-478(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NOMENCLATURE.
  5. "Differential effects of chromatin and Gcn4 on the 50-fold range of expression among individual yeast Ty1 retrotransposons."
    Morillon A., Benard L., Springer M., Lesage P.
    Mol. Cell. Biol. 22:2078-2088(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
  6. "Happy together: the life and times of Ty retrotransposons and their hosts."
    Lesage P., Todeschini A.L.
    Cytogenet. Genome Res. 110:70-90(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: REVIEW.

Entry informationi

Entry nameiYJ12A_YEAST
AccessioniPrimary (citable) accession number: P47099
Secondary accession number(s): D6VWK2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: July 9, 2014
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Retrotransposons are mobile genetic entities that are able to replicate via an RNA intermediate and a reverse transcription step. In contrast to retroviruses, retrotransposons are non-infectious, lack an envelope and remain intracellular. Ty1 retrotransposons belong to the copia elements (pseudoviridae).

Keywords - Technical termi

Complete proteome, Reference proteome, Transposable element

Documents

  1. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. Yeast chromosome X
    Yeast (Saccharomyces cerevisiae) chromosome X: entries and gene names

External Data

Dasty 3

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