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Q12173

- YG31A_YEAST

UniProt

Q12173 - YG31A_YEAST

Protein

Transposon Ty3-G Gag polyprotein

Gene

TY3A-G

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 95 (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.
    Nucleocapsid protein p9 (NC) forms the nucleocore that coats the retro-elements dimeric RNA. Binds these RNAs through its zinc fingers By similarity. Promotes primer tRNA(i)-Met annealing to the multipartite primer-binding site (PBS), dimerization of Ty3 RNA and initiation of reverse transcription.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei207 – 2082Cleavage; by Ty3 protease
    Sitei233 – 2342Cleavage; by Ty3 protease

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri265 – 28218CCHC-typePROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. DNA binding Source: SGD
    2. zinc ion binding Source: InterPro

    GO - Biological processi

    1. transposition, RNA-mediated Source: SGD

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Transposon Ty3-G Gag polyprotein
    Alternative name(s):
    Gag3
    Transposon Ty3-1 protein A
    Short name:
    TY3A
    Cleaved into the following 3 chains:
    Capsid protein
    Short name:
    CA
    Alternative name(s):
    p24
    Nucleocapsid protein p9
    Short name:
    NC
    Short name:
    NCp9
    Alternative name(s):
    p7
    Gene namesi
    Name:TY3A-G
    Synonyms:YGRWTy3-1 GAG
    Ordered Locus Names:YGR109W-A
    ORF Names:G5982
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome VII

    Organism-specific databases

    CYGDiYGR109w-a.
    SGDiS000007346. YGR109W-A.

    Subcellular locationi

    Cytoplasm 1 Publication

    GO - Cellular componenti

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

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi267 – 2671C → S: Reduces level of VLP formation and maturation. 1 Publication
    Mutagenesisi275 – 2751H → Q: Reduces level of VLP formation and maturation. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11Removed1 Publication
    Chaini2 – 290289Transposon Ty3-G Gag polyproteinPRO_5000143279Add
    BLAST
    Chaini2 – 207206Capsid proteinPRO_0000279365Add
    BLAST
    Peptidei208 – 23326Spacer peptide p3PRO_0000279366Add
    BLAST
    Chaini234 – 29057Nucleocapsid protein p9PRO_5000143280Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei2 – 21N-acetylserine1 Publication

    Keywords - PTMi

    Acetylation

    Expressioni

    Gene expression databases

    GenevestigatoriQ12173.

    Interactioni

    Protein-protein interaction databases

    BioGridi33355. 2 interactions.
    STRINGi4932.YGR109W-A.

    Structurei

    3D structure databases

    ProteinModelPortaliQ12173.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domaini

    The N-terminal domain of NC, but not its zinc finger, is required for nucleoprotein complex formation and its chaperone activities.

    Sequence similaritiesi

    Contains 1 CCHC-type zinc finger.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri265 – 28218CCHC-typePROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    GeneTreeiENSGT00740000115124.
    HOGENOMiHOG000155559.
    OrthoDBiEOG7HF1TD.

    Family and domain databases

    InterProiIPR005162. Retrotrans_gag_dom.
    IPR001878. Znf_CCHC.
    [Graphical view]
    PfamiPF03732. Retrotrans_gag. 1 hit.
    [Graphical view]
    SMARTiSM00343. ZnF_C2HC. 1 hit.
    [Graphical view]
    SUPFAMiSSF57756. SSF57756. 1 hit.
    PROSITEiPS50158. ZF_CCHC. 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 Ty3-G Gag polyprotein (identifier: Q12173-1) [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

    MSFMDQIPGG GNYPKLPVEC LPNFPIQPSL TFRGRNDSHK LKNFISEIML    50
    NMSMISWPND ASRIVYCRRH LLNPAAQWAN DFVQEQGILE ITFDTFIQGL 100
    YQHFYKPPDI NKIFNAITQL SEAKLGIERL NQRFRKIWDR MPPDFMTEKA 150
    AIMTYTRLLT KETYNIVRMH KPETLKDAME EAYQTTALTE RFFPGFELDA 200
    DGDTIIGATT HLQEEYDSDY DSEDNLTQNG YVHTVRTRRS YNKPMSNHRN 250
    RRNNNPSREE CIKNRLCFYC KKEGHRLNEC RARKASSNRS 290

    Note: Produced by conventional translation.

    Length:290
    Mass (Da):34,027
    Last modified:November 1, 1996 - v1
    Checksum:i4D63E26BDE78197F
    GO
    Isoform Transposon Ty3-G Gag-Pol polyprotein (identifier: Q99315-1) [UniParc]FASTAAdd to Basket

    The sequence of this isoform can be found in the external entry Q99315.
    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 Ala-285 and Val-286 of the YGR109W-A ORF.

    Length:1,547
    Mass (Da):178,307
    GO

    Sequence cautioni

    The sequence AAA98434.2 differs from that shown. Reason: Erroneous initiation.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M34549 Genomic DNA. Translation: AAA98434.2. Different initiation.
    Z72894 Genomic DNA. Translation: CAA97114.1.
    Z72895 Genomic DNA. Translation: CAA97116.1.
    AY557824 Genomic DNA. Translation: AAS56150.1.
    M18353 Genomic DNA. Translation: AAA66936.1.
    BK006941 Genomic DNA. Translation: DAA08203.1.
    PIRiS22875.
    S69841.
    RefSeqiNP_058162.3. NM_001184380.3. [Q12173-1]

    Genome annotation databases

    EnsemblFungiiYGR109W-A; YGR109W-A; YGR109W-A. [Q12173-1]
    GeneIDi853005.
    KEGGisce:YGR109W-A.

    Keywords - Coding sequence diversityi

    Ribosomal frameshifting

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M34549 Genomic DNA. Translation: AAA98434.2 . Different initiation.
    Z72894 Genomic DNA. Translation: CAA97114.1 .
    Z72895 Genomic DNA. Translation: CAA97116.1 .
    AY557824 Genomic DNA. Translation: AAS56150.1 .
    M18353 Genomic DNA. Translation: AAA66936.1 .
    BK006941 Genomic DNA. Translation: DAA08203.1 .
    PIRi S22875.
    S69841.
    RefSeqi NP_058162.3. NM_001184380.3. [Q12173-1 ]

    3D structure databases

    ProteinModelPortali Q12173.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 33355. 2 interactions.
    STRINGi 4932.YGR109W-A.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YGR109W-A ; YGR109W-A ; YGR109W-A . [Q12173-1 ]
    GeneIDi 853005.
    KEGGi sce:YGR109W-A.

    Organism-specific databases

    CYGDi YGR109w-a.
    SGDi S000007346. YGR109W-A.

    Phylogenomic databases

    GeneTreei ENSGT00740000115124.
    HOGENOMi HOG000155559.
    OrthoDBi EOG7HF1TD.

    Miscellaneous databases

    NextBioi 972854.

    Gene expression databases

    Genevestigatori Q12173.

    Family and domain databases

    InterProi IPR005162. Retrotrans_gag_dom.
    IPR001878. Znf_CCHC.
    [Graphical view ]
    Pfami PF03732. Retrotrans_gag. 1 hit.
    [Graphical view ]
    SMARTi SM00343. ZnF_C2HC. 1 hit.
    [Graphical view ]
    SUPFAMi SSF57756. SSF57756. 1 hit.
    PROSITEi PS50158. ZF_CCHC. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Characterization of a transpositionally active Ty3 element and identification of the Ty3 integrase protein."
      Hansen L.J., Sandmeyer S.B.
      J. Virol. 64:2599-2607(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
      Strain: AB950.
    2. "The sequence of a 23.4 kb segment on the right arm of chromosome VII from Saccharomyces cerevisiae reveals CLB6, SPT6, RP28A and NUP57 genes, a Ty3 element and 11 new open reading frames."
      Hansen M., Albers M., Backes U., Coblenz A., Leuther H., Neu R., Schreer A., Schaefer B., Zimmermann M., Wolf K.
      Yeast 12:1273-1277(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome VII."
      Tettelin H., Agostoni-Carbone M.L., Albermann K., Albers M., Arroyo J., Backes U., Barreiros T., Bertani I., Bjourson A.J., Brueckner M., Bruschi C.V., Carignani G., Castagnoli L., Cerdan E., Clemente M.L., Coblenz A., Coglievina M., Coissac E.
      , Defoor E., Del Bino S., Delius H., Delneri D., de Wergifosse P., Dujon B., Durand P., Entian K.-D., Eraso P., Escribano V., Fabiani L., Fartmann B., Feroli F., Feuermann M., Frontali L., Garcia-Gonzalez M., Garcia-Saez M.I., Goffeau A., Guerreiro P., Hani J., Hansen M., Hebling U., Hernandez K., Heumann K., Hilger F., Hofmann B., Indge K.J., James C.M., Klima R., Koetter P., Kramer B., Kramer W., Lauquin G., Leuther H., Louis E.J., Maillier E., Marconi A., Martegani E., Mazon M.J., Mazzoni C., McReynolds A.D.K., Melchioretto P., Mewes H.-W., Minenkova O., Mueller-Auer S., Nawrocki A., Netter P., Neu R., Nombela C., Oliver S.G., Panzeri L., Paoluzi S., Plevani P., Portetelle D., Portillo F., Potier S., Purnelle B., Rieger M., Riles L., Rinaldi T., Robben J., Rodrigues-Pousada C., Rodriguez-Belmonte E., Rodriguez-Torres A.M., Rose M., Ruzzi M., Saliola M., Sanchez-Perez M., Schaefer B., Schaefer M., Scharfe M., Schmidheini T., Schreer A., Skala J., Souciet J.-L., Steensma H.Y., Talla E., Thierry A., Vandenbol M., van der Aart Q.J.M., Van Dyck L., Vanoni M., Verhasselt P., Voet M., Volckaert G., Wambutt R., Watson M.D., Weber N., Wedler E., Wedler H., Wipfli P., Wolf K., Wright L.F., Zaccaria P., Zimmermann M., Zollner A., Kleine K.
      Nature 387:81-84(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    5. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    6. "A yeast sigma composite element, TY3, has properties of a retrotransposon."
      Clark D.J., Bilanchone V.W., Haywood L.J., Dildine S.L., Sandmeyer S.B.
      J. Biol. Chem. 263:1413-1423(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-22.
    7. "Ty3 GAG3 and POL3 genes encode the components of intracellular particles."
      Hansen L.J., Chalker D.L., Orlinsky K.J., Sandmeyer S.B.
      J. Virol. 66:1414-1424(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION.
    8. "Proteolytic processing of Ty3 proteins is required for transposition."
      Kirchner J., Sandmeyer S.B.
      J. Virol. 67:19-28(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEOLYTIC PROCESSING, CLEAVAGE SITES.
    9. "The Cys-His motif of Ty3 NC can be contributed by Gag3 or Gag3-Pol3 polyproteins."
      Orlinsky K.J., Sandmeyer S.B.
      J. Virol. 68:4152-4166(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION OF NUCLEOCAPSID, MUTAGENESIS OF CYS-267 AND HIS-275.
    10. "The yeast Ty3 retrotransposon contains a 5'-3' bipartite primer-binding site and encodes nucleocapsid protein NCp9 functionally homologous to HIV-1 NCp7."
      Gabus C., Ficheux D., Rau M., Keith G., Sandmeyer S.B., Darlix J.-L.
      EMBO J. 17:4873-4880(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    11. "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.
    12. "Characterization of active reverse transcriptase and nucleoprotein complexes of the yeast retrotransposon Ty3 in vitro."
      Cristofari G., Gabus C., Ficheux D., Bona M., Le Grice S.F.J., Darlix J.-L.
      J. Biol. Chem. 274:36643-36648(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    13. "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.
    14. "Investigation by atomic force microscopy of the structure of Ty3 retrotransposon particles."
      Kuznetsov Y.G., Zhang M., Menees T.M., McPherson A., Sandmeyer S.B.
      J. Virol. 79:8032-8045(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: CLEAVAGE OF INITIATOR METHIONINE, ACETYLATION AT SER-2, CLEAVAGE SITE GLY-207-208-ALA, IDENTIFICATION BY MASS SPECTROMETRY.

    Entry informationi

    Entry nameiYG31A_YEAST
    AccessioniPrimary (citable) accession number: Q12173
    Secondary accession number(s): D6VUP2, Q07096, Q9P311
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 6, 2007
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 95 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. Ty3 retrotransposons belong to the gypsy-like elements (metaviridae).

    Keywords - Technical termi

    Complete proteome, Reference proteome, Transposable element

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome VII
      Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names

    External Data

    Dasty 3