Reviewed, UniProtKB/Swiss-Prot P25383 (YC21A_YEAST)

Names and origin

Protein names

Recommended name:
    Transposon Ty2-C Gag polyprotein
Alternative name(s):
    Ty1-17 protein A
    Transposon Ty2 protein A
      Short name=TY2A
      Short name=TYA
Cleaved into the following 2 chains:
    1- Recommended name:
            Capsid protein
                Short name=CA
    2- Recommended name:
            Gag-p4

Gene names

Name:	TY2A-C
Synonyms:	YCLWTy2-1 GAG
Ordered Locus Names:	YCL020W
ORF Names:	YCL20W

Organism

Saccharomyces cerevisiae (Baker's yeast) [Complete proteome]

Taxonomic identifier

4932 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	438 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 Ty2 RNA and initiation of reverse transcription By similarity.
Subunit structure	Homotrimer By similarity.
Subcellular location	Cytoplasm By similarity.
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. Ty2 retrotransposons belong to the copia elements (pseudoviridae).

Ontologies

Keywords
Cellular component	Cytoplasm
Coding sequence diversity	Ribosomal frameshifting
Technical term	Complete proteome Transposable element
Gene Ontology (GO)
Biological process	transposition Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	RNA binding Inferred from electronic annotation. Source: InterPro protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
SMT3	Q12306	1	EBI-21691,EBI-17490
TY2A-DR3	Q99303	1	EBI-21691,EBI-38535

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.

Isoform Transposon Ty2-C Gag polyprotein (identifier: P25383-1)

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 Ty2-C Gag-Pol polyprotein (identifier: P25384-1)

The sequence of this isoform can be found in the external entry P25384-1.
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-431 and Gly-432 of the YCL020W ORF.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 438	438	Transposon Ty2-C Gag polyprotein		PRO_0000203495
	Chain	1 – 397	397	Capsid protein By similarity		PRO_0000279282
	Peptide	398 – 438	41	Gag-p4 By similarity		PRO_0000279283
Regions
	Region	295 – 397	103	RNA-binding By similarity
Sites
	Site	397 – 398	2	Cleavage; by Ty2 protease By similarity
Experimental info
	Sequence conflict	174	1	E → D Ref.1
	Sequence conflict	174	1	E → D in CAA27457. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform Transposon Ty2-C Gag polyprotein [UniParc]. Last modified September 26, 2001. Version 2. Checksum: D92E6A7BDA32A5B4	FASTA	438	49,841
	10 20 30 40 50 60 MESQQLHQNP RSLHGSAYAS VTSKEVPSNQ DPLAVSASNL PEFDRDSTKV NSQQETTPGT 70 80 90 100 110 120 SAVPENHHHV SPQPASVPPP QNGQYQQHGM MTPNKAMASN WAHYQQPSMM TCSHYQTSPA 130 140 150 160 170 180 YYQPDPHYPL PQYIPPLSTS SPDPIDSQNQ HSEVPQAETK VRNNVLPPHT LTSEENFSTW 190 200 210 220 230 240 VKFYIRFLKN SNLGDIIPND QGEIKRQMTY EEHAYIYNTF QAFAPFHLLP TWVKQILEIN 250 260 270 280 290 300 YADILTVLCK SVSKMQTNNQ ELKDWIALAN LEYDGSTSAD TFEITVSTII QRLKENNINV 310 320 330 340 350 360 SDRLACQLIL KGLSGDFKYL RNQYRTKTNM KLSQLFAEIQ LIYDENKIMN LNKPSQYKQH 370 380 390 400 410 420 SEYKNVSRTS PNTTNTKVTT RNYQRTNSSK PRAAKAHNIA TSSKFSRVNN DHINESTVSS 430 QYLSDDNELS LRPATERI
	Isoform Transposon Ty2-C Gag-Pol polyprotein. See P25384.	FASTA	–	–

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A 'hot-spot' for Ty transposition on the left arm of yeast chromosome III." Warmington J.R., Anwar R., Newlon C.S., Waring R.B., Davies R.W., Indge K.J., Oliver S.G. Nucleic Acids Res. 14:3475-3485(1986) [PubMed: 3010239] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Nucleotide sequence characterization of Ty 1-17, a class II transposon from yeast." Warmington J.R., Waring R.B., Newlon C.S., Indge K.J., Oliver S.G. Nucleic Acids Res. 13:6679-6693(1985) [PubMed: 2997719] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"Variants within the yeast Ty sequence family encode a class of structurally conserved proteins." Fulton A.M., Mellor J., Dobson M.J., Chester J., Warmington J.R., Indge K.J., Oliver S.G., de la Paz P., Wilson W., Kingsman A.J., Kingsman S.M. Nucleic Acids Res. 13:4097-4112(1985) [PubMed: 2989787] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: MD 40-4C.
[4]	"The complete DNA sequence of yeast chromosome III." Oliver S.G., van der Aart Q.J.M., Agostoni-Carbone M.L., Aigle M., Alberghina L., Alexandraki D., Antoine G., Anwar R., Ballesta J.P.G., Benit P., Berben G., Bergantino E., Biteau N., Bolle P.-A., Bolotin-Fukuhara M., Brown A., Brown A.J.P., Buhler J.-M. , Carcano C., Carignani G., Cederberg H., Chanet R., Contreras R., Crouzet M., Daignan-Fornier B., Defoor E., Delgado M.D., Demolder J., Doira C., Dubois E., Dujon B., Duesterhoeft A., Erdmann D., Esteban M., Fabre F., Fairhead C., Faye G., Feldmann H., Fiers W., Francingues-Gaillard M.-C., Franco L., Frontali L., Fukuhara H., Fuller L.J., Galland P., Gent M.E., Gigot D., Gilliquet V., Glansdorff N., Goffeau A., Grenson M., Grisanti P., Grivell L.A., de Haan M., Haasemann M., Hatat D., Hoenicka J., Hegemann J.H., Herbert C.J., Hilger F., Hohmann S., Hollenberg C.P., Huse K., Iborra F., Indge K.J., Isono K., Jacq C., Jacquet M., James C.M., Jauniaux J.-C., Jia Y., Jimenez A., Kelly A., Kleinhans U., Kreisl P., Lanfranchi G., Lewis C., van der Linden C.G., Lucchini G., Lutzenkirchen K., Maat M.J., Mallet L., Mannhaupt G., Martegani E., Mathieu A., Maurer C.T.C., McConnell D., McKee R.A., Messenguy F., Mewes H.-W., Molemans F., Montague M.A., Muzi Falconi M., Navas L., Newlon C.S., Noone D., Pallier C., Panzeri L., Pearson B.M., Perea J., Philippsen P., Pierard A., Planta R.J., Plevani P., Poetsch B., Pohl F.M., Purnelle B., Ramezani Rad M., Rasmussen S.W., Raynal A., Remacha M.A., Richterich P., Roberts A.B., Rodriguez F., Sanz E., Schaaff-Gerstenschlaeger I., Scherens B., Schweitzer B., Shu Y., Skala J., Slonimski P.P., Sor F., Soustelle C., Spiegelberg R., Stateva L.I., Steensma H.Y., Steiner S., Thierry A., Thireos G., Tzermia M., Urrestarazu L.A., Valle G., Vetter I., van Vliet-Reedijk J.C., Voet M., Volckaert G., Vreken P., Wang H., Warmington J.R., von Wettstein D., Wicksteed B.L., Wilson C., Wurst H., Xu G., Yoshikawa A., Zimmermann F.K., Sgouros J.G. Nature 357:38-46(1992) [PubMed: 1574125] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	Gromadka R. Submitted (JAN-1996) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION.
[6]	"Expression of Ty-lacZ fusions in Saccharomyces cerevisiae." Bowen B.A., Fulton A.M., Tuite M.F., Kingsman S.M., Kingsman A.J. Nucleic Acids Res. 12:1627-1640(1984) [PubMed: 6322112] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-63.
[7]	"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: 9582191] [Abstract] Cited for: NOMENCLATURE.
[8]	"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: 16093660] [Abstract] Cited for: REVIEW.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	X03840 Genomic DNA. Translation: CAA27457.1. X59720 Genomic DNA. Translation: CAA42364.2. X02546 Genomic DNA. Translation: CAA26398.1. X00394 Genomic DNA. Translation: CAA25113.1.
PIR	S19347.
RefSeq	NP_009910.2.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
DIP	DIP:7334N.
IntAct	P25383. 5 interactions.
Genome annotation databases
Ensembl	YCL020W. Saccharomyces cerevisiae. [Contig view]
GeneID	850339.
GenomeReviews	Gene locus YCL020W in contig X59720_GR.
KEGG	sce:YCL020W.
Organism-specific databases
CYGD	YCL020w.
SGD	S000000525. YCL020W.
Yeast-GFP	Search...
Phylogenomic databases
HOGENOM	P25383.
Gene expression databases
GermOnline	YCL020W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR015820. Retrotransposon_Ty1A_N. [Graphical view]
Pfam	PF01021. TYA. 1 hit. [Graphical view]
ProDom	PD001086. Pept_A11B_Ty1. 1 hit. [Graphical view] [Entries sharing at least one domain]
ProtoNet	Search...
Other Resources
NextBio	965780.

Entry information

Entry name

YC21A_YEAST

Accession

Primary (citable) accession number: P25383
Secondary accession number(s): Q07125

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 1, 1992
Last sequence update:	September 26, 2001
Last modified:	June 16, 2009
This is version 60 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

FPAP (Fungal Proteome Annotation Project)