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P0C2J4

- YL21A_YEAST

UniProt

P0C2J4 - YL21A_YEAST

Protein

Transposon Ty2-LR1 Gag polyprotein

Gene

TY2A-LR1

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 52 (01 Oct 2014)
      Sequence version 1 (06 Mar 2007)
      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 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

    Keywords - Ligandi

    RNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Transposon Ty2-LR1 Gag polyprotein
    Short name:
    TY2A
    Short name:
    TYA
    Short name:
    Transposon Ty2 protein A
    Cleaved into the following 2 chains:
    Capsid protein
    Short name:
    CA
    Gene namesi
    Name:TY2A-LR1
    Synonyms:YLRWTy2-1 GAG
    Ordered Locus Names:YLR410W-A
    ORF Names:L9931.7b
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XII

    Organism-specific databases

    SGDiS000007379. YLR410W-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 – 438438Transposon Ty2-LR1 Gag polyproteinPRO_0000279329Add
    BLAST
    Chaini1 – 397397Capsid proteinBy similarityPRO_0000279330Add
    BLAST
    Peptidei398 – 43841Gag-p4By similarityPRO_0000279331Add
    BLAST

    Proteomic databases

    PeptideAtlasiP0C2J4.

    Expressioni

    Gene expression databases

    GenevestigatoriP0C2J4.

    Interactioni

    Subunit structurei

    Homotrimer.By similarity

    Protein-protein interaction databases

    BioGridi31668. 8 interactions.

    Structurei

    3D structure databases

    ProteinModelPortaliP0C2J4.
    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.
    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-LR1 Gag polyprotein (identifier: P0C2J4-1) [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

    MESQQLHQNP HSLHGSAYAS VTSKEVPSNQ DPLAVSASNL PEFDRDSTKV    50
    NSQQETTPGT SAVPENHHHV SPQPASVPPP QNGQYQQHGM MTPNKAMASN 100
    WAHYQQPSMM TCSHYQTSPA YYQPDPHYPL PQYIPPLSTS SPDPIDLKNQ 150
    HSEIPQAKTK VGNNVLPPHT LTSEENFSTW VKFYIRFLKN SNLGDIIPND 200
    QGEIKRQMTY EEHAYIYNTF QAFAPFHLLP TWVKQILEIN YADILTVLCK 250
    SVSKMQTNNQ ELKDWIALAN LEYDGSTSAD TFEITVSTII QRLKENNINV 300
    SDRLACQLIL KGLSGDFKYL RNQYRTKTNM KLSQLFAEIQ LIYDENKIMN 350
    LNKPSQYKQH SEYKNVSRTS PNTTNTKVTT RNYHRTNSSK PRAAKAHNIA 400
    TSSKFSRVNN DHINESTVSS QYLSDDNELS LRPATERI 438

    Note: Produced by conventional translation.

    Length:438
    Mass (Da):49,771
    Last modified:March 6, 2007 - v1
    Checksum:i45E2FD1514FF0713
    GO
    Isoform Transposon Ty2-LR1 Gag-Pol polyprotein (identifier: P0C2J3-1) [UniParc]FASTAAdd to Basket

    The sequence of this isoform can be found in the external entry P0C2J3.
    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 YLR410W-A ORF.

    Length:1,770
    Mass (Da):202,122
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U20162 Genomic DNA. No translation available.
    BK006945 Genomic DNA. Translation: DAA09712.1.
    PIRiS69965.
    RefSeqiNP_058175.1. NM_001184410.1. [P0C2J4-1]

    Genome annotation databases

    EnsemblFungiiYLR410W-A; YLR410W-A; YLR410W-A. [P0C2J4-1]
    GeneIDi851127.
    KEGGisce:YLR410W-A.

    Keywords - Coding sequence diversityi

    Ribosomal frameshifting

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U20162 Genomic DNA. No translation available.
    BK006945 Genomic DNA. Translation: DAA09712.1 .
    PIRi S69965.
    RefSeqi NP_058175.1. NM_001184410.1. [P0C2J4-1 ]

    3D structure databases

    ProteinModelPortali P0C2J4.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31668. 8 interactions.

    Proteomic databases

    PeptideAtlasi P0C2J4.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YLR410W-A ; YLR410W-A ; YLR410W-A . [P0C2J4-1 ]
    GeneIDi 851127.
    KEGGi sce:YLR410W-A.

    Organism-specific databases

    SGDi S000007379. YLR410W-A.

    Phylogenomic databases

    GeneTreei ENSGT00730000111602.
    OrthoDBi EOG7RBZJR.

    Miscellaneous databases

    NextBioi 967863.

    Gene expression databases

    Genevestigatori P0C2J4.

    Family and domain databases

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

    Publicationsi

    1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
      Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
      , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
      Nature 387:87-90(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. "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. "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 nameiYL21A_YEAST
    AccessioniPrimary (citable) accession number: P0C2J4
    Secondary accession number(s): D6VZ46
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 6, 2007
    Last sequence update: March 6, 2007
    Last modified: October 1, 2014
    This is version 52 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 XII
      Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

    External Data

    Dasty 3