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Q12266

- YB11A_YEAST

UniProt

Q12266 - YB11A_YEAST

Protein

Transposon Ty1-BL Gag polyprotein

Gene

TY1A-BL

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 81 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    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.By similarity

    Sites

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

    GO - Molecular functioni

    1. RNA binding Source: SGD

    GO - Biological processi

    1. transposition, RNA-mediated Source: SGD

    Keywords - Ligandi

    RNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Transposon Ty1-BL 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-BL
    Synonyms:YBLWTy1-1 GAG
    Ordered Locus Names:YBL005W-A
    ORF Names:YBL004W-B, YBL0324
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome II

    Organism-specific databases

    CYGDiYBL005w-a.
    SGDiS000002146. YBL005W-A.

    Subcellular locationi

    Cytoplasm By similarity

    GO - Cellular componenti

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

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 440440Transposon Ty1-BL Gag polyproteinPRO_0000278990Add
    BLAST
    Chaini1 – 401401Capsid proteinBy similarityPRO_0000278991Add
    BLAST
    Peptidei402 – 44039Gag-p4By similarityPRO_0000278992Add
    BLAST

    Proteomic databases

    PaxDbiQ12266.

    Expressioni

    Inductioni

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

    Gene expression databases

    GenevestigatoriQ12266.

    Interactioni

    Subunit structurei

    Homotrimer.By similarity

    Protein-protein interaction databases

    BioGridi32695. 5 interactions.
    IntActiQ12266. 2 interactions.
    STRINGi4932.YBL005W-A.

    Structurei

    3D structure databases

    ProteinModelPortaliQ12266.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni299 – 401103RNA-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

    eggNOGiNOG12793.
    GeneTreeiENSGT00710000106943.
    HOGENOMiHOG000000740.
    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. 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).By similarity

    Isoform Transposon Ty1-BL Gag polyprotein (identifier: Q12266-1) [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 PIFHGSACAS VTSKEVQTTQ DPLDISASKT EECEKVSTQA    50
    NSQQPTTPPS SAVPENHHHA SPQAAQVPLP QNGPYPQQRM MNTQQANISG 100
    WPVYGHPSLM PYPPYQMSPM YAPPGAQSQF TQYPQYVGTH LNTPSPESGN 150
    SFPDSSSAKS NMTSTNQHVR PPPILTSPND FLNWVKIYIK FLQNSNLGDI 200
    IPTATRKAVR QMTDDELTFL CHTFQLFAPS QFLPPWVKDI LSVDYTDIMK 250
    ILSKSINKMQ SDTQEVNDIT TLATLHYNGS TPADAFEAEV TNILDRLNNN 300
    GIPINNKVAC QFIMRGLSGE YKFLPYARHR CIHMTVADLF SDIHSMYEEQ 350
    QESKRNKSTY RRSPSDEKKD SRTYTNTTKP KSITRNSQKP NNSQSRTARA 400
    HNVSTFNNSP GPDNDLIRGS TTEPIQLKNT HDLHLRPGTY 440

    Note: Produced by conventional translation.

    Length:440
    Mass (Da):49,285
    Last modified:November 1, 1996 - v1
    Checksum:iEBE246012C88C029
    GO
    Isoform Transposon Ty1-BL Gag-Pol polyprotein (identifier: Q12490-1) [UniParc]FASTAAdd to Basket

    The sequence of this isoform can be found in the external entry Q12490.
    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 YBL005W-A ORF.

    Length:1,755
    Mass (Da):198,969
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z35765 Genomic DNA. Translation: CAA84819.1.
    Z35766 Genomic DNA. Translation: CAA84823.1.
    BK006936 Genomic DNA. Translation: DAA07117.1.
    PIRiS45737.
    RefSeqiNP_009550.1. NM_001180047.1. [Q12266-1]

    Genome annotation databases

    EnsemblFungiiYBL005W-A; YBL005W-A; YBL005W-A. [Q12266-1]
    GeneIDi852279.
    KEGGisce:YBL005W-A.

    Keywords - Coding sequence diversityi

    Ribosomal frameshifting

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z35765 Genomic DNA. Translation: CAA84819.1 .
    Z35766 Genomic DNA. Translation: CAA84823.1 .
    BK006936 Genomic DNA. Translation: DAA07117.1 .
    PIRi S45737.
    RefSeqi NP_009550.1. NM_001180047.1. [Q12266-1 ]

    3D structure databases

    ProteinModelPortali Q12266.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 32695. 5 interactions.
    IntActi Q12266. 2 interactions.
    STRINGi 4932.YBL005W-A.

    Proteomic databases

    PaxDbi Q12266.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YBL005W-A ; YBL005W-A ; YBL005W-A . [Q12266-1 ]
    GeneIDi 852279.
    KEGGi sce:YBL005W-A.

    Organism-specific databases

    CYGDi YBL005w-a.
    SGDi S000002146. YBL005W-A.

    Phylogenomic databases

    eggNOGi NOG12793.
    GeneTreei ENSGT00710000106943.
    HOGENOMi HOG000000740.
    OrthoDBi EOG7TJ3S3.

    Miscellaneous databases

    NextBioi 970902.

    Gene expression databases

    Genevestigatori Q12266.

    Family and domain databases

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

    Publicationsi

    1. "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.
    2. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    3. "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.
    4. "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.
    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.
    6. "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae."
      Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P.
      J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Strain: ADR376.
    7. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
      Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
      Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    8. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
      Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
      Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiYB11A_YEAST
    AccessioniPrimary (citable) accession number: Q12266
    Secondary accession number(s): D6VPZ7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 6, 2007
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 81 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 II
      Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

    External Data

    Dasty 3