Q6Q5P6 (YH41A_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

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

Gene names

Name:	TY4A-H
Synonyms:	YHLWTy4-1 GAG
Ordered Locus Names:	YHL009W-A
ORF Names:	YHL008W-B

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	413 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).

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.4. Source: SGD
Cellular_component	retrotransposon nucleocapsid Inferred from sequence or structural similarity Ref.4. Source: SGD
Molecular_function	RNA binding Inferred from sequence or structural similarity Ref.4. 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-H Gag polyprotein (identifier: Q6Q5P6-1)

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-H Gag-Pol polyprotein (identifier: P0C2J7-1)

The sequence of this isoform can be found in the external entry P0C2J7.
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-362 and Gly-363 of the YHL009W-A ORF.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 413	413	Transposon Ty4-H Gag polyprotein		PRO_0000279381
Regions
	Coiled coil	39 – 115	77	Potential

Sequences

	Sequence		Length	Mass (Da)
	Isoform Transposon Ty4-H Gag polyprotein [UniParc]. Last modified July 5, 2004. Version 1. Checksum: FB55118BEC987195	FASTA	413	48,214
	10 20 30 40 50 60 MATPVRDETR NVIDDNISAR IQSKVKTNDT VRQTPSSLRK VSIKDEQVKQ YQRNLNRFKT 70 80 90 100 110 120 ILNGLKAEEE KLSETDDIQM 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 GLKNKYRSLH GRDVRIRAWE 250 260 270 280 290 300 KVLVDTTCRN SALLMNKLQK LVLMEKWIFS KCCQDCPNLK DYLQEAIMGT LHESLRNSVK 310 320 330 340 350 360 QRLYNIPHNV GINHEEFLIN TVIETVIDLS PIADDQIENS CMYCKSVFHC SINCKKKPNR 370 380 390 400 410 ELRPDSTNFS KTYYLQGAQR QQQLKSSAKR TKVLEQDTKK VKQSVQQQKT GNY
	Isoform Transposon Ty4-H Gag-Pol polyprotein [UniParc]. See P0C2J7.		–	–

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII." Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Dover J., Du Z., Favello A., Fulton L., Gattung S., Geisel C., Kirsten J., Kucaba T., Hillier L.W., Jier M., Johnston L., Langston Y., Latreille P. , Louis E.J., Macri C., Mardis E., Menezes S., Mouser L., Nhan M., Rifkin L., Riles L., St Peter H., Trevaskis E., Vaughan K., Vignati D., Wilcox L., Wohldman P., Waterston R., Wilson R., Vaudin M. Science 265:2077-2082(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[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	U11581 Genomic DNA. No translation available. AY557839 Genomic DNA. Translation: AAS56165.1. BK006934 Genomic DNA. Translation: DAA06679.1.
PIR	S52610.
RefSeq	NP_058134.1. NM_001184403.1.
3D structure databases
ProteinModelPortal	Q6Q5P6.
ModBase	Search...
Protein-protein interaction databases
MINT	MINT-504056.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YHL009W-A; YHL009W-A; YHL009W-A.
GeneID	856379.
KEGG	sce:YHL009W-A.
Organism-specific databases
CYGD	YHL009w-a.
SGD	S000007371. YHL009W-A.
Phylogenomic databases
eggNOG	NOG283194.
GeneTree	ENSGT00660000095815.
HOGENOM	HOG000155564.
OrthoDB	EOG47DDSK.
Gene expression databases
ArrayExpress	Q6Q5P6.
Genevestigator	Q6Q5P6.
Family and domain databases
InterPro	IPR001878. Znf_CCHC. [Graphical view]
SMART	SM00343. ZnF_C2HC. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	981872.

Entry information

Entry name

YH41A_YEAST

Accession

Primary (citable) accession number: Q6Q5P6
Secondary accession number(s): D3DKQ6

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 6, 2007
Last sequence update:	July 5, 2004
Last modified:	April 3, 2013
This is version 57 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program