P47023 (YJ41A_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Transposon Ty4-J Gag polyprotein
Short name=TY4A
Short name=Transposon Ty4 protein A

Gene names

Name:	TY4A-J
Synonyms:	YJLWTy4-1 GAG
Ordered Locus Names:	YJL114W
ORF Names:	J0775

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	414 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript 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 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. Ty4 retrotransposons belong to the copia elements (pseudoviridae).
Sequence caution	The sequence DAA08687.2 differs from that shown. Reason: Frameshift at positions 226 and 240.

Ontologies

Keywords
Coding sequence diversity	Ribosomal frameshifting
Domain	Coiled coil
Technical term	Complete proteome Reference proteome Transposable element
Gene Ontology (GO)
Biological_process	transposition, RNA-mediated Inferred from sequence or structural similarity Ref.5. Source: SGD
Cellular_component	retrotransposon nucleocapsid Inferred from sequence or structural similarity Ref.5. Source: SGD
Molecular_function	RNA binding Inferred from sequence or structural similarity Ref.5. Source: SGD 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 Ty4-J Gag polyprotein (identifier: P47023-1)

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 Ty4-J Gag-Pol polyprotein (identifier: P47024-1)

The sequence of this isoform can be found in the external entry P47024.
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-363 and Gly-364 of the YJL114W ORF.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 414	414	Transposon Ty4-J Gag polyprotein		PRO_0000203501
Regions
	Coiled coil	39 – 115	77	Potential

Sequences

	Sequence		Length	Mass (Da)
	Isoform Transposon Ty4-J Gag polyprotein [UniParc]. Last modified February 1, 1996. Version 1. Checksum: 541F3767BE5F8275	FASTA	414	48,035
	10 20 30 40 50 60 MATPVRGETR NVIDDNISAR IQSKVKTNDT VRQTPSSLRK VSIKDEQVRQ YQRNLNRFKT 70 80 90 100 110 120 ILNGLKAEEE KLSEADDIQM LAEKLLKLGE TIDKVENRIV DLVEKIQLLE TNENNNILHE 130 140 150 160 170 180 HIDATGTYYL FDTLTSTNKR FYPKDCVFDY RTNNVENIPI LLNNFKKFIK KYQFDDVFEN 190 200 210 220 230 240 DIIEIDPREN EILCKIIKEG LGESLDIMNT NTTDIFRIID GLKKQNIEVC MVEMSELEPG 250 260 270 280 290 300 EKVLVDTTCR NSALLMNKLQ KLVLMEKWIF SKCCQDCPNL KDYLQEAIMG TLHESLRNSV 310 320 330 340 350 360 KQRLYNIPHD VGIDHEEFLI NTVIETVIDL SPIADDQIEN SCMYCKSVFH CSINCKKKPN 370 380 390 400 410 RELRPDSTNF SKTYYLQGAQ RQQPLKSSAK RTKVLEQDTK KVEQSVQQQK TGNY
	Isoform Transposon Ty4-J Gag-Pol polyprotein [UniParc]. See P47024.		–	–

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Ty4, a new retrotransposon from Saccharomyces cerevisiae, flanked by tau-elements." Janetzky B., Lehle L. J. Biol. Chem. 267:19798-19805(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[2]	"Sequencing analysis of a 40.2 kb fragment of yeast chromosome X reveals 19 open reading frames including URA2 (5' end), TRK1, PBS2, SPT10, GCD14, RPE1, PHO86, NCA3, ASF1, CCT7, GZF3, two tRNA genes, three remnant delta elements and a Ty4 transposon." Cziepluch C., Kordes E., Pujol A., Jauniaux J.-C. Yeast 12:1471-1474(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[3]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X." Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K. , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L. EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[4]	Saccharomyces Genome Database Submitted (MAR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION, SEQUENCE REVISION TO 226 AND 240. Strain: ATCC 204508 / S288c.
[5]	"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.
[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.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X67284 Genomic DNA. No translation available. Z49389 Genomic DNA. Translation: CAA89408.1. BK006943 Genomic DNA. Translation: DAA08687.2. Frameshift.
PIR	JC1482. S31261.
RefSeq	NP_012422.2. NM_001181547.2.
3D structure databases
ProteinModelPortal	P47023.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-7219N.
IntAct	P47023. 7 interactions.
MINT	MINT-390812.
STRING	4932.YJL114W.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	853329.
KEGG	sce:YJL114W.
Organism-specific databases
CYGD	YJL114w.
SGD	S000003650. YJL114W.
Phylogenomic databases
HOGENOM	HOG000155564.
OrthoDB	EOG47DDSK.
Gene expression databases
ArrayExpress	P47023.
Genevestigator	P47023.
GermOnline	YJL114W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR001878. Znf_CCHC. [Graphical view]
SMART	SM00343. ZnF_C2HC. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	973692.

Entry information

Entry name

YJ41A_YEAST

Accession

Primary (citable) accession number: P47023
Secondary accession number(s): D6VW71

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1996
Last sequence update:	February 1, 1996
Last modified:	April 3, 2013
This is version 80 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program