ID   YJ41A_YEAST             Reviewed;         414 AA.
AC   P47023; D6VW71;
DT   01-FEB-1996, integrated into UniProtKB/Swiss-Prot.
DT   01-FEB-1996, sequence version 1.
DT   24-JAN-2024, entry version 138.
DE   RecName: Full=Transposon Ty4-J Gag polyprotein;
DE            Short=TY4A;
DE            Short=Transposon Ty4 protein A;
GN   Name=TY4A-J; Synonyms=YJLWTy4-1 GAG; OrderedLocusNames=YJL114W;
GN   ORFNames=J0775;
OS   Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
OC   Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes;
OC   Saccharomycetales; Saccharomycetaceae; Saccharomyces.
OX   NCBI_TaxID=559292;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=ATCC 204508 / S288c;
RX   PubMed=1328182; DOI=10.1016/s0021-9258(19)88624-6;
RA   Janetzky B., Lehle L.;
RT   "Ty4, a new retrotransposon from Saccharomyces cerevisiae, flanked by tau-
RT   elements.";
RL   J. Biol. Chem. 267:19798-19805(1992).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=ATCC 96604 / S288c / FY1679;
RX   PubMed=8948101;
RX   DOI=10.1002/(sici)1097-0061(199611)12:14<1471::aid-yea30>3.0.co;2-4;
RA   Cziepluch C., Kordes E., Pujol A., Jauniaux J.-C.;
RT   "Sequencing analysis of a 40.2 kb fragment of yeast chromosome X reveals 19
RT   open reading frames including URA2 (5' end), TRK1, PBS2, SPT10, GCD14,
RT   RPE1, PHO86, NCA3, ASF1, CCT7, GZF3, two tRNA genes, three remnant delta
RT   elements and a Ty4 transposon.";
RL   Yeast 12:1471-1474(1996).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC 204508 / S288c;
RX   PubMed=8641269; DOI=10.1002/j.1460-2075.1996.tb00557.x;
RA   Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C.,
RA   Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D.,
RA   Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J.,
RA   Heumann K., Hilger F., Hollenberg C.P., Huang M.-E., Jacq C.,
RA   Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E.,
RA   Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T.,
RA   Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B.,
RA   Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R.,
RA   Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N.,
RA   To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H.,
RA   von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L.;
RT   "Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X.";
RL   EMBO J. 15:2031-2049(1996).
RN   [4]
RP   GENOME REANNOTATION, AND SEQUENCE REVISION TO 226 AND 240.
RC   STRAIN=ATCC 204508 / S288c;
RX   PubMed=24374639; DOI=10.1534/g3.113.008995;
RA   Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R.,
RA   Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S.,
RA   Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.;
RT   "The reference genome sequence of Saccharomyces cerevisiae: Then and now.";
RL   G3 (Bethesda) 4:389-398(2014).
RN   [5]
RP   NOMENCLATURE.
RX   PubMed=9582191; DOI=10.1101/gr.8.5.464;
RA   Kim J.M., Vanguri S., Boeke J.D., Gabriel A., Voytas D.F.;
RT   "Transposable elements and genome organization: a comprehensive survey of
RT   retrotransposons revealed by the complete Saccharomyces cerevisiae genome
RT   sequence.";
RL   Genome Res. 8:464-478(1998).
RN   [6]
RP   REVIEW.
RX   PubMed=16093660; DOI=10.1159/000084940;
RA   Lesage P., Todeschini A.L.;
RT   "Happy together: the life and times of Ty retrotransposons and their
RT   hosts.";
RL   Cytogenet. Genome Res. 110:70-90(2005).
CC   -!- FUNCTION: Capsid protein (CA) is the structural component of the virus-
CC       like particle (VLP), forming the shell that encapsulates the
CC       retrotransposons dimeric RNA genome. {ECO:0000250}.
CC   -!- ALTERNATIVE PRODUCTS:
CC       Event=Ribosomal frameshifting; Named isoforms=2;
CC         Comment=The Gag-Pol polyprotein is generated by a +1 ribosomal
CC         frameshift.;
CC       Name=Transposon Ty4-J Gag polyprotein;
CC         IsoId=P47023-1; Sequence=Displayed;
CC       Name=Transposon Ty4-J Gag-Pol polyprotein;
CC         IsoId=P47024-1; Sequence=External;
CC   -!- MISCELLANEOUS: Retrotransposons are mobile genetic entities that are
CC       able to replicate via an RNA intermediate and a reverse transcription
CC       step. In contrast to retroviruses, retrotransposons are non-infectious,
CC       lack an envelope and remain intracellular. Ty4 retrotransposons belong
CC       to the copia elements (pseudoviridae).
CC   -!- MISCELLANEOUS: [Isoform Transposon Ty4-J Gag polyprotein]: Produced by
CC       conventional translation.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=DAA08687.2; Type=Frameshift; Evidence={ECO:0000305};
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DR   EMBL; X67284; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR   EMBL; Z49389; CAA89408.1; -; Genomic_DNA.
DR   EMBL; BK006943; DAA08687.2; ALT_FRAME; Genomic_DNA.
DR   PIR; JC1482; JC1482.
DR   PIR; S31261; S31261.
DR   RefSeq; NP_012422.2; NM_001181547.2.
DR   AlphaFoldDB; P47023; -.
DR   SMR; P47023; -.
DR   BioGRID; 33641; 6.
DR   DIP; DIP-7219N; -.
DR   IntAct; P47023; 7.
DR   MINT; P47023; -.
DR   GeneID; 853329; -.
DR   KEGG; sce:YJL114W; -.
DR   AGR; SGD:S000003650; -.
DR   SGD; S000003650; YJL114W.
DR   InParanoid; P47023; -.
DR   OrthoDB; 2039886at2759; -.
DR   Proteomes; UP000002311; Chromosome X.
DR   RNAct; P47023; Protein.
DR   GO; GO:0000943; C:retrotransposon nucleocapsid; ISS:SGD.
DR   GO; GO:0003723; F:RNA binding; ISS:SGD.
DR   GO; GO:0032197; P:retrotransposition; ISS:SGD.
PE   3: Inferred from homology;
KW   Coiled coil; Reference proteome; Ribosomal frameshifting;
KW   Transposable element.
FT   CHAIN           1..414
FT                   /note="Transposon Ty4-J Gag polyprotein"
FT                   /id="PRO_0000203501"
FT   REGION          378..414
FT                   /note="Disordered"
FT                   /evidence="ECO:0000256|SAM:MobiDB-lite"
FT   COILED          39..115
FT                   /evidence="ECO:0000255"
SQ   SEQUENCE   414 AA;  48035 MW;  541F3767BE5F8275 CRC64;
     MATPVRGETR NVIDDNISAR IQSKVKTNDT VRQTPSSLRK VSIKDEQVRQ YQRNLNRFKT
     ILNGLKAEEE KLSEADDIQM LAEKLLKLGE TIDKVENRIV DLVEKIQLLE TNENNNILHE
     HIDATGTYYL FDTLTSTNKR FYPKDCVFDY RTNNVENIPI LLNNFKKFIK KYQFDDVFEN
     DIIEIDPREN EILCKIIKEG LGESLDIMNT NTTDIFRIID GLKKQNIEVC MVEMSELEPG
     EKVLVDTTCR NSALLMNKLQ KLVLMEKWIF SKCCQDCPNL KDYLQEAIMG TLHESLRNSV
     KQRLYNIPHD VGIDHEEFLI NTVIETVIDL SPIADDQIEN SCMYCKSVFH CSINCKKKPN
     RELRPDSTNF SKTYYLQGAQ RQQPLKSSAK RTKVLEQDTK KVEQSVQQQK TGNY
//