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Protein

Transposon Ty1-OL Gag polyprotein

Gene

TY1A-OL

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

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
Complete GO annotation...

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Transposon Ty1-OL 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-OL
Synonyms:YOLWTy1-1 GAG
Ordered Locus Names:YOL103W-A
ORF Names:HRA440
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome XV

Organism-specific databases

CYGDiYOL103w-a.
SGDiS000007349. YOL103W-A.

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

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

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 440440Transposon Ty1-OL Gag polyproteinPRO_0000279158Add
BLAST
Chaini1 – 401401Capsid proteinBy similarityPRO_0000279159Add
BLAST
Peptidei402 – 44039Gag-p4By similarityPRO_0000279160Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei416 – 4161PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ92392.
PaxDbiQ92392.

Expressioni

Inductioni

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

Gene expression databases

GenevestigatoriQ92392.

Interactioni

Subunit structurei

Homotrimer.By similarity

Protein-protein interaction databases

BioGridi34298. 13 interactions.
IntActiQ92392. 3 interactions.
MINTiMINT-4083914.

Structurei

3D structure databases

ProteinModelPortaliQ92392.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

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

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi64 – 14683Pro-richAdd
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.
InParanoidiQ92392.
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. The ratio of Gag:Gag-Pol varies between 20:1 and 5:1 (By similarity).By similarity

Isoform Transposon Ty1-OL Gag polyprotein (identifier: Q92392-1) [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
MESQQLSNYP QISHGSACAS VTSKEVHTNQ DPLDVSASKT EECEKASTKA
60 70 80 90 100
NSQQTTTPAS SAVPENPHHA SPQPASVPPP QNGPYPQQCM MTQNQANPSG
110 120 130 140 150
WSFYGHPSMI PYTPYQMSPM YFPPGPQSQF PQYPSSVGTP LSTPSPESGN
160 170 180 190 200
TFTDSSSADS DMTSTKKYVR PPPMLTSPND FPNWVKTYIK FLQNSNLGGI
210 220 230 240 250
IPTVNGKPVR QITDDELTFL YNTFQIFAPS QFLPTWVKDI LSVDYTDIMK
260 270 280 290 300
ILSKSIEKMQ SDTQEANDIV TLANLQYNGS TPADAFETKV TNIINRLNNN
310 320 330 340 350
GIHINNKVAC QLIMRGLSGE YKFLRYTRHR HLNMTVAELF LDIHAIYEEQ
360 370 380 390 400
QGSRNSKPNY RRNLSDEKND SRSYTNTTKP KVIARNPQKT NNSKSKTARA
410 420 430 440
HNVSTSNNSP STDNDSISKS TTEPIQLNNK HDLHLRPGTY

Note: Produced by conventional translation.

Length:440
Mass (Da):49,005
Last modified:February 1, 1997 - v1
Checksum:i4E3D83778FDFB2FB
GO
Isoform Transposon Ty1-OL Gag-Pol polyprotein (identifier: Q12273-1) [UniParc]FASTAAdd to basket

The sequence of this isoform can be found in the external entry Q12273.
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 YOL103W-A ORF.

Length:1,755
Mass (Da):198,614
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z48149 Genomic DNA. Translation: CAA88157.1.
Z74845 Genomic DNA. Translation: CAA99117.1.
Z74846 Genomic DNA. Translation: CAA99121.1.
BK006948 Genomic DNA. Translation: DAA10680.1.
PIRiS51894.
RefSeqiNP_058182.1. NM_001184383.1. [Q92392-1]

Genome annotation databases

EnsemblFungiiYOL103W-A; YOL103W-A; YOL103W-A. [Q92392-1]
GeneIDi854048.
KEGGisce:YOL103W-A.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z48149 Genomic DNA. Translation: CAA88157.1.
Z74845 Genomic DNA. Translation: CAA99117.1.
Z74846 Genomic DNA. Translation: CAA99121.1.
BK006948 Genomic DNA. Translation: DAA10680.1.
PIRiS51894.
RefSeqiNP_058182.1. NM_001184383.1. [Q92392-1]

3D structure databases

ProteinModelPortaliQ92392.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34298. 13 interactions.
IntActiQ92392. 3 interactions.
MINTiMINT-4083914.

Proteomic databases

MaxQBiQ92392.
PaxDbiQ92392.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYOL103W-A; YOL103W-A; YOL103W-A. [Q92392-1]
GeneIDi854048.
KEGGisce:YOL103W-A.

Organism-specific databases

CYGDiYOL103w-a.
SGDiS000007349. YOL103W-A.

Phylogenomic databases

eggNOGiNOG12793.
GeneTreeiENSGT00710000106943.
HOGENOMiHOG000000740.
InParanoidiQ92392.
OrthoDBiEOG7TJ3S3.

Miscellaneous databases

NextBioi975626.

Gene expression databases

GenevestigatoriQ92392.

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 44 kb DNA fragment of yeast chromosome XV including the Ty1-H3 retrotransposon, the suf1(+) frameshift suppressor gene for tRNA-Gly, the yeast transfer RNA-Thr-1a and a delta element."
    Vandenbol M., Durand P., Portetelle D., Hilger F.
    Yeast 11:1069-1075(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XV."
    Dujon B., Albermann K., Aldea M., Alexandraki D., Ansorge W., Arino J., Benes V., Bohn C., Bolotin-Fukuhara M., Bordonne R., Boyer J., Camasses A., Casamayor A., Casas C., Cheret G., Cziepluch C., Daignan-Fornier B., Dang V.-D.
    , de Haan M., Delius H., Durand P., Fairhead C., Feldmann H., Gaillon L., Galisson F., Gamo F.-J., Gancedo C., Goffeau A., Goulding S.E., Grivell L.A., Habbig B., Hand N.J., Hani J., Hattenhorst U., Hebling U., Hernando Y., Herrero E., Heumann K., Hiesel R., Hilger F., Hofmann B., Hollenberg C.P., Hughes B., Jauniaux J.-C., Kalogeropoulos A., Katsoulou C., Kordes E., Lafuente M.J., Landt O., Louis E.J., Maarse A.C., Madania A., Mannhaupt G., Marck C., Martin R.P., Mewes H.-W., Michaux G., Paces V., Parle-McDermott A.G., Pearson B.M., Perrin A., Pettersson B., Poch O., Pohl T.M., Poirey R., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rechmann S., Schwager C., Schweizer M., Sor F., Sterky F., Tarassov I.A., Teodoru C., Tettelin H., Thierry A., Tobiasch E., Tzermia M., Uhlen M., Unseld M., Valens M., Vandenbol M., Vetter I., Vlcek C., Voet M., Volckaert G., Voss H., Wambutt R., Wedler H., Wiemann S., Winsor B., Wolfe K.H., Zollner A., Zumstein E., Kleine K.
    Nature 387:98-102(1997) [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. "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.
  6. "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 nameiYO11A_YEAST
AccessioniPrimary (citable) accession number: Q92392
Secondary accession number(s): D6W1W4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: February 1, 1997
Last modified: March 4, 2015
This is version 87 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 XV
    Yeast (Saccharomyces cerevisiae) chromosome XV: 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.