Q99219 (YI31A_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Transposon Ty3-I Gag polyprotein

Alternative name(s):
Gag3
Transposon Ty3-2 protein A
Short name=TY3A

Cleaved into the following 3 chains:

1. Capsid protein
   Short name=CA
   Alternative name(s):
   p24
2. Spacer peptide p3
3. Nucleocapsid protein p9
   Short name=NC
   Alternative name(s):
   p7

Gene names

Name:	TY3A-I
Synonyms:	YILWTy3-1 GAG
Ordered Locus Names:	YIL082W

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	290 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

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. Nucleocapsid protein p9 (NC) forms the nucleocore that coats the retro-elements dimeric RNA. Binds these RNAs through its zinc fingers By similarity. Promotes primer tRNA(i)-Met annealing to the multipartite primer-binding site (PBS), dimerization of Ty3 RNA and initiation of reverse transcription.
Subcellular location	Cytoplasm.
Domain	The N-terminal domain of NC, but not its zinc finger, is required for nucleoprotein complex formation and its chaperone activities.
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. Ty3 retrotransposons belong to the gypsy-like elements (metaviridae).
Sequence similarities	Contains 1 CCHC-type zinc finger.
Sequence caution	The sequence AAA35183.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Cellular component	Cytoplasm
Coding sequence diversity	Ribosomal frameshifting
Domain	Zinc-finger
Ligand	Metal-binding Zinc
Technical term	Complete proteome Reference proteome Transposable element
Gene Ontology (GO)
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	nucleic acid binding Inferred from electronic annotation. Source: InterPro zinc ion binding Inferred from electronic annotation. Source: InterPro
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.

Isoform Transposon Ty3-I Gag polyprotein (identifier: Q99219-1)

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 Ty3-I Gag-Pol polyprotein (identifier: Q7LHG5-1)

The sequence of this isoform can be found in the external entry Q7LHG5.
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 Ala-285 and Val-286 of the YIL082W ORF.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed By similarity
	Chain	2 – 290	289	Transposon Ty3-I Gag polyprotein		PRO_0000279376
	Chain	2 – 207	206	Capsid protein		PRO_0000279377
	Peptide	208 – 233	26	Spacer peptide p3		PRO_0000279378
	Chain	234 – 290	57	Nucleocapsid protein p9		PRO_0000279379
Regions
	Zinc finger	265 – 282	18	CCHC-type
Sites
	Site	207 – 208	2	Cleavage; by Ty3 protease
	Site	233 – 234	2	Cleavage; by Ty3 protease

Sequences

	Sequence		Length	Mass (Da)
	Isoform Transposon Ty3-I Gag polyprotein [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 5113F9717ADD196A	FASTA	290	34,100
	10 20 30 40 50 60 MSFMDQIPGG GNYPKLPVEC LPNFPIQPSL TFRGRNDSHK LKNFISEIML NMSMISWPND 70 80 90 100 110 120 ASRIVYCRRH LLNPAAQWAN DFVQEQGILE ITFDTFIQGL YQHFYKPPDI NKIFNAITQL 130 140 150 160 170 180 SEAKLGIERL NQRFRKIWDR MPPDFMTEKA AIMTYTRLLT KETYNIVRMH KPETLKDAME 190 200 210 220 230 240 EAYQTTALTE RFFPGFELDA DGDTIIGATT HLQEEYDSDY DSEDNLTQNR YVHTVRTRRS 250 260 270 280 290 YNKPMSNHRN RRNNNASREE CIKNRLCFYC KKEGHRLNEC RARKASSNRS
	Isoform Transposon Ty3-I Gag-Pol polyprotein [UniParc]. See Q7LHG5.		–	–

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Ty3, a yeast retrotransposon associated with tRNA genes, has homology to animal retroviruses." Hansen L.J., Chalker D.L., Sandmeyer S.B. Mol. Cell. Biol. 8:5245-5256(1988) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome IX." Churcher C.M., Bowman S., Badcock K., Bankier A.T., Brown D., Chillingworth T., Connor R., Devlin K., Gentles S., Hamlin N., Harris D.E., Horsnell T., Hunt S., Jagels K., Jones M., Lye G., Moule S., Odell C. , Pearson D., Rajandream M.A., Rice P., Rowley N., Skelton J., Smith V., Walsh S.V., Whitehead S., Barrell B.G. Nature 387:84-87(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. 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]	"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.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M23367 Genomic DNA. Translation: AAA35183.1. Different initiation. Z46728 Genomic DNA. Translation: CAA86712.1. AY557875 Genomic DNA. Translation: AAS56201.1.
PIR	S41555.
3D structure databases
ProteinModelPortal	Q99219.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-8996N.
IntAct	Q99219. 1 interaction.
MINT	MINT-394390.
STRING	4932.YIL082W.
Proteomic databases
PaxDb	Q99219.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YIL082W; YIL082W; YIL082W.
Organism-specific databases
CYGD	YIL082w.
SGD	S000001344. YIL082W.
Phylogenomic databases
eggNOG	NOG242522.
GeneTree	ENSGT00700000104358.
HOGENOM	HOG000155559.
Gene expression databases
Genevestigator	Q99219.
Family and domain databases
InterPro	IPR005162. Retrotrans_gag. IPR001878. Znf_CCHC. [Graphical view]
Pfam	PF03732. Retrotrans_gag. 1 hit. [Graphical view]
SMART	SM00343. ZnF_C2HC. 1 hit. [Graphical view]
PROSITE	PS50158. ZF_CCHC. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

YI31A_YEAST

Accession

Primary (citable) accession number: Q99219

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 6, 2007
Last sequence update:	November 1, 1996
Last modified:	April 3, 2013
This is version 74 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program