Q12266 (YB11A_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Transposon Ty1-BL 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-BL
Synonyms:	YBLWTy1-1 GAG
Ordered Locus Names:	YBL005W-A
ORF Names:	YBL004W-B, YBL0324

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	440 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence 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-BL is a highly 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

Keywords
Cellular component	Cytoplasm
Coding sequence diversity	Ribosomal frameshifting
Ligand	RNA-binding
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome Transposable element
Gene Ontology (GO)
Biological_process	transposition, RNA-mediated Inferred from sequence or structural similarity Ref.3. Source: SGD
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell retrotransposon nucleocapsid Inferred from sequence or structural similarity Ref.3. Source: SGD
Molecular_function	RNA binding Inferred from sequence or structural similarity Ref.3. Source: SGD
Complete GO annotation...

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-BL Gag polyprotein (identifier: Q12266-1)

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-BL Gag-Pol polyprotein (identifier: Q12490-1)

The sequence of this isoform can be found in the external entry Q12490.
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 YBL005W-A ORF.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 440	440	Transposon Ty1-BL Gag polyprotein		PRO_0000278990
	Chain	1 – 401	401	Capsid protein By similarity		PRO_0000278991
	Peptide	402 – 440	39	Gag-p4 By similarity		PRO_0000278992
Regions
	Region	299 – 401	103	RNA-binding By similarity
Sites
	Site	401 – 402	2	Cleavage; by Ty1 protease By similarity
Amino acid modifications
	Modified residue	409	1	Phosphoserine Ref.6

Sequences

	Sequence		Length	Mass (Da)
	Isoform Transposon Ty1-BL Gag polyprotein [UniParc]. Last modified November 1, 1996. Version 1. Checksum: EBE246012C88C029	FASTA	440	49,285
	10 20 30 40 50 60 MESQQLSQHS PIFHGSACAS VTSKEVQTTQ DPLDISASKT EECEKVSTQA NSQQPTTPPS 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 YKFLPYARHR CIHMTVADLF SDIHSMYEEQ QESKRNKSTY 370 380 390 400 410 420 RRSPSDEKKD SRTYTNTTKP KSITRNSQKP NNSQSRTARA HNVSTFNNSP GPDNDLIRGS 430 440 TTEPIQLKNT HDLHLRPGTY
	Isoform Transposon Ty1-BL Gag-Pol polyprotein [UniParc]. See Q12490.		–	–

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete DNA sequence of yeast chromosome II." Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C. , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K. EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases 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: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-409, MASS SPECTROMETRY. Strain: ADR376.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z35765 Genomic DNA. Translation: CAA84819.1. Z35766 Genomic DNA. Translation: CAA84823.1. BK006936 Genomic DNA. Translation: DAA07117.1.
PIR	S45737.
RefSeq	NP_009550.1. NM_001180047.1.
3D structure databases
ProteinModelPortal	Q12266.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q12266. 2 interactions.
STRING	4932.YBL005W-A.
Proteomic databases
PaxDb	Q12266.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YBL005W-A; YBL005W-A; YBL005W-A.
GeneID	852279.
KEGG	sce:YBL005W-A.
Organism-specific databases
CYGD	YBL005w-a.
SGD	S000002146. YBL005W-A.
Phylogenomic databases
eggNOG	NOG12793.
GeneTree	ENSGT00700000104791.
HOGENOM	HOG000000740.
Gene expression databases
Genevestigator	Q12266.
Family and domain databases
InterPro	IPR015820. Retrotransposon_Ty1A_N. [Graphical view]
Pfam	PF01021. TYA. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	970902.

Entry information

Entry name

YB11A_YEAST

Accession

Primary (citable) accession number: Q12266
Secondary accession number(s): D6VPZ7

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 6, 2007
Last sequence update:	November 1, 1996
Last modified:	April 3, 2013
This is version 75 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program