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Q12392

- YD21A_YEAST

UniProt

Q12392 - YD21A_YEAST

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Protein

Transposon Ty2-DR1 Gag polyprotein

Gene

TY2A-DR1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi

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 Ty2 RNA and initiation of reverse transcription By similarity.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei397 – 3982Cleavage; by Ty2 proteaseBy 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 Ty2-DR1 Gag polyprotein
Alternative name(s):
Transposon Ty2 protein A
Short name:
TY2A
Short name:
TYA
Ty917 protein A
Cleaved into the following 2 chains:
Capsid protein
Short name:
CA
Gene namesi
Name:TY2A-DR1
Synonyms:YDRCTy2-1 GAG
Ordered Locus Names:YDR034C-C
ORF Names:YD9673.06c
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome IV

Organism-specific databases

CYGDiYDR034c-c.
SGDiS000007344. YDR034C-C.

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 438438Transposon Ty2-DR1 Gag polyproteinPRO_0000279289Add
BLAST
Chaini1 – 397397Capsid proteinBy similarityPRO_0000279290Add
BLAST
Peptidei398 – 43841Gag-p4By similarityPRO_0000279291Add
BLAST

Expressioni

Gene expression databases

GenevestigatoriQ12392.

Interactioni

Subunit structurei

Homotrimer.By similarity

Protein-protein interaction databases

BioGridi32085. 17 interactions.
MINTiMINT-4083834.

Structurei

3D structure databases

ProteinModelPortaliQ12392.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni295 – 397103RNA-bindingBy similarityAdd
BLAST

Domaini

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

Phylogenomic databases

GeneTreeiENSGT00730000111602.
HOGENOMiHOG000000740.
InParanoidiQ12392.
OrthoDBiEOG7RBZJR.

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.

Isoform Transposon Ty2-DR1 Gag polyprotein (identifier: Q12392-1) [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
MESQQLSQNS PNLHGSAYAS VTSKEVPSNQ DPLAVSASNL PEFDRDSTKV
60 70 80 90 100
NSQQETTPGT SAVPENHHHV SPQPASVPPP QNGQYQQHGM MTPNKAMASN
110 120 130 140 150
WAHYQQPSMM TCSHYQTSPA YYQPDPHYPL PQYIPPLSTS SPDPIDLKNQ
160 170 180 190 200
HSEIPQAKTK VGNNVLPPHT LTSEENFSTW VKFYIRFLKN SNLGDIIPND
210 220 230 240 250
QGEIKRQMTY EEHAYIYNTF QAFAPFHLLP TWVKQILEIN YADILTVLCK
260 270 280 290 300
SVSKMQTNNQ ELKDWIALAN LEYDGSTSAD TFEITVSTII QRLKENNINV
310 320 330 340 350
SDRLACQLIL KGLSGDFKYL RNQYRTKTNM KLSQLFAEIQ LIYDENKIMN
360 370 380 390 400
LNKPSQYKQH SEYKNVSRTS PNTTNTKVTT RNYQRTNSSK PRAAKAHNIA
410 420 430
TSSKFSRVNN DHINESTVSS QYLSDDNELS LRPATERI

Note: Produced by conventional translation.

Length:438
Mass (Da):49,689
Last modified:November 1, 1996 - v1
Checksum:i1D273B0A0B34C3D1
GO
Isoform Transposon Ty2-DR1 Gag-Pol polyprotein (identifier: Q12472-1) [UniParc]FASTAAdd to Basket

The sequence of this isoform can be found in the external entry Q12472.
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-431 and Gly-432 of the YDR034C-C ORF.

Length:1,770
Mass (Da):201,965
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z68196 Genomic DNA. Translation: CAA92373.1.
Z74330 Genomic DNA. Translation: CAA98858.1.
Z74331 Genomic DNA. Translation: CAA98860.1.
M18805 Genomic DNA. Translation: AAA35187.1.
BK006938 Genomic DNA. Translation: DAA11880.1.
PIRiA39980.
S61589.
RefSeqiNP_058139.1. NM_001184378.1. [Q12392-1]

Genome annotation databases

EnsemblFungiiYDR034C-C; YDR034C-C; YDR034C-C. [Q12392-1]
GeneIDi851600.
KEGGisce:YDR034C-C.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z68196 Genomic DNA. Translation: CAA92373.1 .
Z74330 Genomic DNA. Translation: CAA98858.1 .
Z74331 Genomic DNA. Translation: CAA98860.1 .
M18805 Genomic DNA. Translation: AAA35187.1 .
BK006938 Genomic DNA. Translation: DAA11880.1 .
PIRi A39980.
S61589.
RefSeqi NP_058139.1. NM_001184378.1. [Q12392-1 ]

3D structure databases

ProteinModelPortali Q12392.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 32085. 17 interactions.
MINTi MINT-4083834.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YDR034C-C ; YDR034C-C ; YDR034C-C . [Q12392-1 ]
GeneIDi 851600.
KEGGi sce:YDR034C-C.

Organism-specific databases

CYGDi YDR034c-c.
SGDi S000007344. YDR034C-C.

Phylogenomic databases

GeneTreei ENSGT00730000111602.
HOGENOMi HOG000000740.
InParanoidi Q12392.
OrthoDBi EOG7RBZJR.

Miscellaneous databases

NextBioi 969096.

Gene expression databases

Genevestigatori Q12392.

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 nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
    Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
    , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
    Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "The upstream activation site of a Ty2 element of yeast is necessary but not sufficient to promote maximal transcription of the element."
    Liao X.B., Clare J.J., Farabaugh P.J.
    Proc. Natl. Acad. Sci. U.S.A. 84:8520-8524(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-103.
  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. "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 nameiYD21A_YEAST
AccessioniPrimary (citable) accession number: Q12392
Secondary accession number(s): D6VS20, P87338, Q7LIH4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: November 1, 1996
Last modified: October 29, 2014
This is version 80 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. Ty2 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 IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

External Data

Dasty 3