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Protein

Transposon Ty2-B Gag polyprotein

Gene

TY2A-B

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: 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

  • RNA binding Source: SGD

GO - Biological processi

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

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Transposon Ty2-B Gag polyprotein
Short name:
TY2A
Short name:
TYA
Short name:
Transposon Ty2 protein A
Alternative name(s):
A-438 protein
Cleaved into the following 2 chains:
Capsid protein
Short name:
CA
Gene namesi
Name:TY2A-B
Synonyms:YBLWTy2-1 GAG
Ordered Locus Names:YBL100W-A
ORF Names:YBL0821, YBL101W-A
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome II

Organism-specific databases

CYGDiYBL100w-a.
SGDiS000002148. YBL100W-A.

Subcellular locationi

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 438438Transposon Ty2-B Gag polyproteinPRO_0000279275Add
BLAST
Chaini1 – 397397Capsid proteinBy similarityPRO_0000279276Add
BLAST
Peptidei398 – 43841Gag-p4By similarityPRO_0000279277Add
BLAST

Interactioni

Subunit structurei

Homotrimer.By similarity

Protein-protein interaction databases

BioGridi32603. 2 interactions.
DIPiDIP-8933N.
IntActiQ12260. 5 interactions.
MINTiMINT-393855.
STRINGi4932.YBL100W-A.

Structurei

3D structure databases

ProteinModelPortaliQ12260.
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.
InParanoidiQ12260.
OrthoDBiEOG7TJ3S3.

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. AlignAdd to basket

Note: The Gag-Pol polyprotein is generated by a +1 ribosomal frameshift.

Isoform Transposon Ty2-B Gag polyprotein (identifier: Q12260-1) [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
MESQQLHQNP HSLHGSAYAS VTSKEVSSNQ DPLAVSASNL PEFDRDSTKV
60 70 80 90 100
NSQQETTPGT SAVPENHHHV SPQPASVPPP QNGQYQQHGM MTPNKAMASN
110 120 130 140 150
WAHYQQPSMM TCSHYQTSPA YYQPDPHYPL PQYIPPLSTS SPDPIDSQDQ
160 170 180 190 200
HSEVPQAKTK VRNNVLPPHT LTSEENFYTW 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 RNYHRTNSSK PRAAKAHNIA
410 420 430
TSSKFSRVNN DHINESTVSS QYLSDDNELS LRPATERI
Note: Produced by conventional translation.
Length:438
Mass (Da):49,898
Last modified:November 1, 1996 - v1
Checksum:i381BA464909FA967
GO
Isoform Transposon Ty2-B Gag-Pol polyprotein (identifier: Q12491-1) [UniParc]FASTAAdd to basket

The sequence of this isoform can be found in the external entry Q12491.
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 YBL100W-A ORF.
Length:1,770
Mass (Da):202,215
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X79489 Genomic DNA. Translation: CAA55997.1.
Z35861 Genomic DNA. Translation: CAA84921.1.
Z35862 Genomic DNA. Translation: CAA84925.1.
BK006936 Genomic DNA. Translation: DAA07025.1.
PIRiS45397.
RefSeqiNP_009451.1. NM_001180049.1. [Q12260-1]

Genome annotation databases

EnsemblFungiiYBL100W-A; YBL100W-A; YBL100W-A. [Q12260-1]
GeneIDi852174.
KEGGisce:YBL100W-A.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X79489 Genomic DNA. Translation: CAA55997.1.
Z35861 Genomic DNA. Translation: CAA84921.1.
Z35862 Genomic DNA. Translation: CAA84925.1.
BK006936 Genomic DNA. Translation: DAA07025.1.
PIRiS45397.
RefSeqiNP_009451.1. NM_001180049.1. [Q12260-1]

3D structure databases

ProteinModelPortaliQ12260.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32603. 2 interactions.
DIPiDIP-8933N.
IntActiQ12260. 5 interactions.
MINTiMINT-393855.
STRINGi4932.YBL100W-A.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYBL100W-A; YBL100W-A; YBL100W-A. [Q12260-1]
GeneIDi852174.
KEGGisce:YBL100W-A.

Organism-specific databases

CYGDiYBL100w-a.
SGDiS000002148. YBL100W-A.

Phylogenomic databases

GeneTreeiENSGT00730000111602.
HOGENOMiHOG000000740.
InParanoidiQ12260.
OrthoDBiEOG7TJ3S3.

Miscellaneous databases

NextBioi970629.

Family and domain databases

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

Publicationsi

« Hide 'large scale' publications
  1. "Sequence analysis of a 78.6 kb segment of the left end of Saccharomyces cerevisiae chromosome II."
    Obermaier B., Gassenhuber J., Piravandi E., Domdey H.
    Yeast 11:1103-1112(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. "Complete DNA sequence of yeast chromosome II."
    Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
    , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
    EMBO J. 13:5795-5809(1994) [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. "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 nameiYB21A_YEAST
AccessioniPrimary (citable) accession number: Q12260
Secondary accession number(s): D6VPQ5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: November 1, 1996
Last modified: June 24, 2015
This is version 86 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 II
    Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

External Data

Dasty 3

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 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.