Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q04215 (YM13A_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 83. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Transposon Ty1-MR1 Gag polyprotein
Alternative name(s):
Gag-p49
Transposon Ty1 protein A
Short name=TY1A
Short name=TYA
p58

Cleaved into the following 2 chains:

  1. Capsid protein
    Short name=CA
    Alternative name(s):
    Gag-p45
    p54
  2. Gag-p4
Gene names
Name:TY1A-MR1
Synonyms:YMRCTy1-3 GAG
Ordered Locus Names:YMR046C
ORF Names:YM9532.11C
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length440 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

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.

Subunit structure

Homotrimer By similarity.

Subcellular location

Cytoplasm By similarity.

Induction

Ty1-MR1 is a weakly expressed element. Induced under amino acid starvation conditions by GCN4. Ref.4

Domain

The C-terminal RNA-binding region of CA is sufficient for all its nucleocapsid-like chaperone activities By similarity.

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).

Ontologies

Alternative products

This entry describes 2 isoforms produced by ribosomal frameshifting. [Align] [Select]

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).
Isoform Transposon Ty1-MR1 Gag polyprotein (identifier: Q04215-1)

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.
Note: Produced by conventional translation.
Isoform Transposon Ty1-MR1 Gag-Pol polyprotein (identifier: Q04214-1)

The sequence of this isoform can be found in the external entry Q04214.
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 YMR046C ORF.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 440440Transposon Ty1-MR1 Gag polyprotein
PRO_0000203499
Chain1 – 401401Capsid protein By similarity
PRO_0000279131
Peptide402 – 44039Gag-p4 By similarity
PRO_0000279132

Regions

Region299 – 401103RNA-binding By similarity

Sites

Site401 – 4022Cleavage; by Ty1 protease By similarity

Sequences

Sequence LengthMass (Da)Tools
Isoform Transposon Ty1-MR1 Gag polyprotein [UniParc].

Last modified November 1, 1997. Version 1.
Checksum: 6948648D0FEE321E

FASTA44049,274
        10         20         30         40         50         60 
MESQQLSQHS PISHGSACAS VTSKEVQTTQ DPLDISASKT EECEKVSTQA NSQQPTTPLS 

        70         80         90        100        110        120 
SAVPENHHHA SPQAAQVPLP QNGPYPQQRM MNTQQANISG WPVYGHPSLM PYPPYQMSPM 

       130        140        150        160        170        180 
YAPPGAQSQF TQYPQYVGTH LNTPSPESGN SFPDSSSAKS NMTSTNQHVR PPPILTSPND 

       190        200        210        220        230        240 
FLNWVKIYIK FLQNSNLGDI IPTATRKAVR QMTDDELTFL CHTFQLFAPS QFLPPWVKDI 

       250        260        270        280        290        300 
LSVDYTDIMK ILSKSINKMQ SDTQEVNDIT TLATLHYNGS TPADAFEAEV TNILDRLNNN 

       310        320        330        340        350        360 
GIPINNKVAC QFIMRGLSGE YKFLRYARHR CIHMTVADLF SDIHSMYEEQ QESKRNKSTH 

       370        380        390        400        410        420 
RRSPSDEKKD SRTYTNTTKP KSITRNSQKP NNSQSRTARA HNVSTFNNSP GPDNDLIRGS 

       430        440 
TTEPIQLKNT HDLHLRPGTY 

« Hide

Isoform Transposon Ty1-MR1 Gag-Pol polyprotein [UniParc].

See Q04214.

References

« Hide 'large scale' references
[1]"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII."
Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T., Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S., Jagels K., Lye G., Moule S., Odell C., Pearson D., Rajandream M.A., Rice P. expand/collapse author list , Skelton J., Walsh S.V., Whitehead S., Barrell B.G.
Nature 387:90-93(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[2]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
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].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Z48502 Genomic DNA. Translation: CAA88412.1.
BK006946 Genomic DNA. Translation: DAA09945.1.
PIRS52895.
RefSeqNP_013760.1. NM_001182543.1. [Q04215-1]

3D structure databases

ProteinModelPortalQ04215.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid35219. 9 interactions.
IntActQ04215. 2 interactions.
STRING4932.YMR046C.

Proteomic databases

MaxQBQ04215.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYMR046C; YMR046C; YMR046C. [Q04215-1]
GeneID855063.
KEGGsce:YMR046C.

Organism-specific databases

CYGDYMR046c.
SGDS000004649. YMR046C.

Phylogenomic databases

GeneTreeENSGT00710000106943.
HOGENOMHOG000000740.
OrthoDBEOG7TJ3S3.

Gene expression databases

GenevestigatorQ04215.

Family and domain databases

InterProIPR015820. Retrotransposon_Ty1A_N.
[Graphical view]
PfamPF01021. TYA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio978324.

Entry information

Entry nameYM13A_YEAST
AccessionPrimary (citable) accession number: Q04215
Secondary accession number(s): D6VZM1
Entry history
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: July 9, 2014
This is version 83 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome XIII

Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD