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Q12173

- YG31A_YEAST

UniProt

Q12173 - YG31A_YEAST

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Protein

Transposon Ty3-G Gag polyprotein

Gene

TY3A-G

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

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.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei207 – 2082Cleavage; by Ty3 protease
Sitei233 – 2342Cleavage; by Ty3 protease

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri265 – 28218CCHC-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: SGD
  2. zinc ion binding Source: InterPro

GO - Biological processi

  1. transposition, RNA-mediated Source: SGD
Complete GO annotation...

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Transposon Ty3-G Gag polyprotein
Alternative name(s):
Gag3
Transposon Ty3-1 protein A
Short name:
TY3A
Cleaved into the following 3 chains:
Capsid protein
Short name:
CA
Alternative name(s):
p24
Nucleocapsid protein p9
Short name:
NC
Short name:
NCp9
Alternative name(s):
p7
Gene namesi
Name:TY3A-G
Synonyms:YGRWTy3-1 GAG
Ordered Locus Names:YGR109W-A
ORF Names:G5982
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome VII

Organism-specific databases

CYGDiYGR109w-a.
SGDiS000007346. YGR109W-A.

Subcellular locationi

Cytoplasm 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-KW
  2. retrotransposon nucleocapsid Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi267 – 2671C → S: Reduces level of VLP formation and maturation. 1 Publication
Mutagenesisi275 – 2751H → Q: Reduces level of VLP formation and maturation. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 290289Transposon Ty3-G Gag polyproteinPRO_5000143279Add
BLAST
Chaini2 – 207206Capsid proteinPRO_0000279365Add
BLAST
Peptidei208 – 23326Spacer peptide p3PRO_0000279366Add
BLAST
Chaini234 – 29057Nucleocapsid protein p9PRO_5000143280Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylserine1 Publication

Keywords - PTMi

Acetylation

Expressioni

Gene expression databases

GenevestigatoriQ12173.

Interactioni

Protein-protein interaction databases

BioGridi33355. 2 interactions.
STRINGi4932.YGR109W-A.

Structurei

3D structure databases

ProteinModelPortaliQ12173.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domaini

The N-terminal domain of NC, but not its zinc finger, is required for nucleoprotein complex formation and its chaperone activities.

Sequence similaritiesi

Contains 1 CCHC-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri265 – 28218CCHC-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00740000115124.
HOGENOMiHOG000155559.
InParanoidiQ12173.
OrthoDBiEOG7HF1TD.

Family and domain databases

InterProiIPR005162. Retrotrans_gag_dom.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF03732. Retrotrans_gag. 1 hit.
[Graphical view]
SMARTiSM00343. ZnF_C2HC. 1 hit.
[Graphical view]
SUPFAMiSSF57756. SSF57756. 1 hit.
PROSITEiPS50158. ZF_CCHC. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by ribosomal frameshifting. Align

Note: The Gag-Pol polyprotein is generated by a +1 ribosomal frameshift.

Isoform Transposon Ty3-G Gag polyprotein (identifier: Q12173-1) [UniParc]FASTAAdd to Basket

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.

« Hide

        10         20         30         40         50
MSFMDQIPGG GNYPKLPVEC LPNFPIQPSL TFRGRNDSHK LKNFISEIML
60 70 80 90 100
NMSMISWPND ASRIVYCRRH LLNPAAQWAN DFVQEQGILE ITFDTFIQGL
110 120 130 140 150
YQHFYKPPDI NKIFNAITQL SEAKLGIERL NQRFRKIWDR MPPDFMTEKA
160 170 180 190 200
AIMTYTRLLT KETYNIVRMH KPETLKDAME EAYQTTALTE RFFPGFELDA
210 220 230 240 250
DGDTIIGATT HLQEEYDSDY DSEDNLTQNG YVHTVRTRRS YNKPMSNHRN
260 270 280 290
RRNNNPSREE CIKNRLCFYC KKEGHRLNEC RARKASSNRS

Note: Produced by conventional translation.

Length:290
Mass (Da):34,027
Last modified:November 1, 1996 - v1
Checksum:i4D63E26BDE78197F
GO
Isoform Transposon Ty3-G Gag-Pol polyprotein (identifier: Q99315-1) [UniParc]FASTAAdd to Basket

The sequence of this isoform can be found in the external entry Q99315.
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 YGR109W-A ORF.

Length:1,547
Mass (Da):178,307
GO

Sequence cautioni

The sequence AAA98434.2 differs from that shown. Reason: Erroneous initiation.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M34549 Genomic DNA. Translation: AAA98434.2. Different initiation.
Z72894 Genomic DNA. Translation: CAA97114.1.
Z72895 Genomic DNA. Translation: CAA97116.1.
AY557824 Genomic DNA. Translation: AAS56150.1.
M18353 Genomic DNA. Translation: AAA66936.1.
BK006941 Genomic DNA. Translation: DAA08203.1.
PIRiS22875.
S69841.
RefSeqiNP_058162.3. NM_001184380.3. [Q12173-1]

Genome annotation databases

EnsemblFungiiYGR109W-A; YGR109W-A; YGR109W-A. [Q12173-1]
GeneIDi853005.
KEGGisce:YGR109W-A.

Keywords - Coding sequence diversityi

Ribosomal frameshifting

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M34549 Genomic DNA. Translation: AAA98434.2 . Different initiation.
Z72894 Genomic DNA. Translation: CAA97114.1 .
Z72895 Genomic DNA. Translation: CAA97116.1 .
AY557824 Genomic DNA. Translation: AAS56150.1 .
M18353 Genomic DNA. Translation: AAA66936.1 .
BK006941 Genomic DNA. Translation: DAA08203.1 .
PIRi S22875.
S69841.
RefSeqi NP_058162.3. NM_001184380.3. [Q12173-1 ]

3D structure databases

ProteinModelPortali Q12173.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 33355. 2 interactions.
STRINGi 4932.YGR109W-A.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YGR109W-A ; YGR109W-A ; YGR109W-A . [Q12173-1 ]
GeneIDi 853005.
KEGGi sce:YGR109W-A.

Organism-specific databases

CYGDi YGR109w-a.
SGDi S000007346. YGR109W-A.

Phylogenomic databases

GeneTreei ENSGT00740000115124.
HOGENOMi HOG000155559.
InParanoidi Q12173.
OrthoDBi EOG7HF1TD.

Miscellaneous databases

NextBioi 972854.

Gene expression databases

Genevestigatori Q12173.

Family and domain databases

InterProi IPR005162. Retrotrans_gag_dom.
IPR001878. Znf_CCHC.
[Graphical view ]
Pfami PF03732. Retrotrans_gag. 1 hit.
[Graphical view ]
SMARTi SM00343. ZnF_C2HC. 1 hit.
[Graphical view ]
SUPFAMi SSF57756. SSF57756. 1 hit.
PROSITEi PS50158. ZF_CCHC. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of a transpositionally active Ty3 element and identification of the Ty3 integrase protein."
    Hansen L.J., Sandmeyer S.B.
    J. Virol. 64:2599-2607(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
    Strain: AB950.
  2. "The sequence of a 23.4 kb segment on the right arm of chromosome VII from Saccharomyces cerevisiae reveals CLB6, SPT6, RP28A and NUP57 genes, a Ty3 element and 11 new open reading frames."
    Hansen M., Albers M., Backes U., Coblenz A., Leuther H., Neu R., Schreer A., Schaefer B., Zimmermann M., Wolf K.
    Yeast 12:1273-1277(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome VII."
    Tettelin H., Agostoni-Carbone M.L., Albermann K., Albers M., Arroyo J., Backes U., Barreiros T., Bertani I., Bjourson A.J., Brueckner M., Bruschi C.V., Carignani G., Castagnoli L., Cerdan E., Clemente M.L., Coblenz A., Coglievina M., Coissac E.
    , Defoor E., Del Bino S., Delius H., Delneri D., de Wergifosse P., Dujon B., Durand P., Entian K.-D., Eraso P., Escribano V., Fabiani L., Fartmann B., Feroli F., Feuermann M., Frontali L., Garcia-Gonzalez M., Garcia-Saez M.I., Goffeau A., Guerreiro P., Hani J., Hansen M., Hebling U., Hernandez K., Heumann K., Hilger F., Hofmann B., Indge K.J., James C.M., Klima R., Koetter P., Kramer B., Kramer W., Lauquin G., Leuther H., Louis E.J., Maillier E., Marconi A., Martegani E., Mazon M.J., Mazzoni C., McReynolds A.D.K., Melchioretto P., Mewes H.-W., Minenkova O., Mueller-Auer S., Nawrocki A., Netter P., Neu R., Nombela C., Oliver S.G., Panzeri L., Paoluzi S., Plevani P., Portetelle D., Portillo F., Potier S., Purnelle B., Rieger M., Riles L., Rinaldi T., Robben J., Rodrigues-Pousada C., Rodriguez-Belmonte E., Rodriguez-Torres A.M., Rose M., Ruzzi M., Saliola M., Sanchez-Perez M., Schaefer B., Schaefer M., Scharfe M., Schmidheini T., Schreer A., Skala J., Souciet J.-L., Steensma H.Y., Talla E., Thierry A., Vandenbol M., van der Aart Q.J.M., Van Dyck L., Vanoni M., Verhasselt P., Voet M., Volckaert G., Wambutt R., Watson M.D., Weber N., Wedler E., Wedler H., Wipfli P., Wolf K., Wright L.F., Zaccaria P., Zimmermann M., Zollner A., Kleine K.
    Nature 387:81-84(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  5. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  6. "A yeast sigma composite element, TY3, has properties of a retrotransposon."
    Clark D.J., Bilanchone V.W., Haywood L.J., Dildine S.L., Sandmeyer S.B.
    J. Biol. Chem. 263:1413-1423(1988) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-22.
  7. "Ty3 GAG3 and POL3 genes encode the components of intracellular particles."
    Hansen L.J., Chalker D.L., Orlinsky K.J., Sandmeyer S.B.
    J. Virol. 66:1414-1424(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  8. "Proteolytic processing of Ty3 proteins is required for transposition."
    Kirchner J., Sandmeyer S.B.
    J. Virol. 67:19-28(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEOLYTIC PROCESSING, CLEAVAGE SITES.
  9. "The Cys-His motif of Ty3 NC can be contributed by Gag3 or Gag3-Pol3 polyproteins."
    Orlinsky K.J., Sandmeyer S.B.
    J. Virol. 68:4152-4166(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF NUCLEOCAPSID, MUTAGENESIS OF CYS-267 AND HIS-275.
  10. "The yeast Ty3 retrotransposon contains a 5'-3' bipartite primer-binding site and encodes nucleocapsid protein NCp9 functionally homologous to HIV-1 NCp7."
    Gabus C., Ficheux D., Rau M., Keith G., Sandmeyer S.B., Darlix J.-L.
    EMBO J. 17:4873-4880(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  11. "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.
  12. "Characterization of active reverse transcriptase and nucleoprotein complexes of the yeast retrotransposon Ty3 in vitro."
    Cristofari G., Gabus C., Ficheux D., Bona M., Le Grice S.F.J., Darlix J.-L.
    J. Biol. Chem. 274:36643-36648(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  13. "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.
  14. "Investigation by atomic force microscopy of the structure of Ty3 retrotransposon particles."
    Kuznetsov Y.G., Zhang M., Menees T.M., McPherson A., Sandmeyer S.B.
    J. Virol. 79:8032-8045(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: CLEAVAGE OF INITIATOR METHIONINE, ACETYLATION AT SER-2, CLEAVAGE SITE GLY-207-208-ALA, IDENTIFICATION BY MASS SPECTROMETRY.

Entry informationi

Entry nameiYG31A_YEAST
AccessioniPrimary (citable) accession number: Q12173
Secondary accession number(s): D6VUP2, Q07096, Q9P311
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: November 1, 1996
Last modified: October 29, 2014
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

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).

Keywords - Technical termi

Complete proteome, Reference proteome, Transposable element

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome VII
    Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names

External Data

Dasty 3