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Protein

Vacuolar protein-sorting-associated protein 25

Gene

VPS25

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Component of the ESCRT-II complex (endosomal sorting complex required for transport II), which is required for multivesicular body (MVB) formation and sorting of endosomal cargo proteins into MVBs. The MVB pathway mediates delivery of transmembrane proteins into the lumen of the lysosome for degradation. The ESCRT-II complex is probably involved in the recruitment of the ESCRT-III complex.1 Publication

GO - Molecular functioni

  • structural molecule activity Source: SGD

GO - Biological processi

  • negative regulation of transcription from RNA polymerase II promoter by glucose Source: SGD
  • protein targeting to vacuole Source: SGD
  • ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway Source: SGD
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-31730-MONOMER.
ReactomeiREACT_303262. Endosomal Sorting Complex Required For Transport (ESCRT).

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein-sorting-associated protein 25
Alternative name(s):
ESCRT-II complex subunit VPS25
Gene namesi
Name:VPS25
Synonyms:VPT25
Ordered Locus Names:YJR102C
ORF Names:J1957
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome X

Organism-specific databases

CYGDiYJR102c.
EuPathDBiFungiDB:YJR102C.
SGDiS000003863. VPS25.

Subcellular locationi

GO - Cellular componenti

  • ESCRT II complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 202202Vacuolar protein-sorting-associated protein 25PRO_0000215221Add
BLAST

Proteomic databases

PaxDbiP47142.

Interactioni

Subunit structurei

Homodimer. Component of the endosomal sorting complex required for transport II (ESCRT-II), which consists of 2 copies of VPS25, 1 copy of SNF8, and 1 copy of VPS36. The ESCRT-II complex interacts directly with the VPS20 subunit of the ESCRT-III complex.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
SNF8Q124834EBI-25595,EBI-30277
VPS20Q042723EBI-25595,EBI-28157
VPS36Q066963EBI-25595,EBI-36540

Protein-protein interaction databases

BioGridi33858. 61 interactions.
DIPiDIP-4446N.
IntActiP47142. 8 interactions.
MINTiMINT-486583.
STRINGi4932.YJR102C.

Structurei

Secondary structure

1
202
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi7 – 93Combined sources
Helixi11 – 133Combined sources
Helixi20 – 4021Combined sources
Beta strandi45 – 473Combined sources
Beta strandi50 – 523Combined sources
Turni79 – 824Combined sources
Helixi87 – 9913Combined sources
Beta strandi102 – 11110Combined sources
Beta strandi120 – 1234Combined sources
Helixi128 – 14013Combined sources
Helixi151 – 1544Combined sources
Turni164 – 1674Combined sources
Helixi170 – 18112Combined sources
Helixi182 – 1843Combined sources
Beta strandi187 – 1904Combined sources
Beta strandi196 – 2005Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1U5TX-ray3.60C/D1-202[»]
1W7PX-ray3.60B/C1-202[»]
1XB4X-ray3.10A/B/C/D1-202[»]
ProteinModelPortaliP47142.
SMRiP47142. Positions 1-199.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP47142.

Family & Domainsi

Sequence similaritiesi

Belongs to the VPS25 family.Curated

Phylogenomic databases

eggNOGiNOG270942.
GeneTreeiENSGT00390000014892.
HOGENOMiHOG000191978.
InParanoidiP47142.
KOiK12189.
OMAiPPFFTIQ.
OrthoDBiEOG7QRR76.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
1.10.10.570. 1 hit.
InterProiIPR008570. ESCRT-II_cplx_vps25-sub.
IPR014041. ESCRT-II_cplx_Vps25-sub_N.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PANTHERiPTHR13149. PTHR13149. 1 hit.
PfamiPF05871. ESCRT-II. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P47142-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSALPPVYSF PPLYTRQPNS LTRRQQISTW IDIISQYCKT KKIWYMSVDG
60 70 80 90 100
TVINDNELDS GSTDNDDSKK ISKNLFNNED IQRSVSQVFI DEIWSQMTKE
110 120 130 140 150
GKCLPIDQSG RRSSNTTTTR YFILWKSLDS WASLILQWFE DSGKLNQVIT
160 170 180 190 200
LYELSEGDET VNWEFHRMPE SLLYYCLKPL CDRNRATMLK DENDKVIAIK

VV
Length:202
Mass (Da):23,558
Last modified:February 1, 1996 - v1
Checksum:i6A4545A8BC772CA2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49602 Genomic DNA. Translation: CAA89632.1.
BK006943 Genomic DNA. Translation: DAA08887.1.
PIRiS57123.
RefSeqiNP_012636.1. NM_001181760.1.

Genome annotation databases

EnsemblFungiiYJR102C; YJR102C; YJR102C.
GeneIDi853566.
KEGGisce:YJR102C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49602 Genomic DNA. Translation: CAA89632.1.
BK006943 Genomic DNA. Translation: DAA08887.1.
PIRiS57123.
RefSeqiNP_012636.1. NM_001181760.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1U5TX-ray3.60C/D1-202[»]
1W7PX-ray3.60B/C1-202[»]
1XB4X-ray3.10A/B/C/D1-202[»]
ProteinModelPortaliP47142.
SMRiP47142. Positions 1-199.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33858. 61 interactions.
DIPiDIP-4446N.
IntActiP47142. 8 interactions.
MINTiMINT-486583.
STRINGi4932.YJR102C.

Proteomic databases

PaxDbiP47142.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYJR102C; YJR102C; YJR102C.
GeneIDi853566.
KEGGisce:YJR102C.

Organism-specific databases

CYGDiYJR102c.
EuPathDBiFungiDB:YJR102C.
SGDiS000003863. VPS25.

Phylogenomic databases

eggNOGiNOG270942.
GeneTreeiENSGT00390000014892.
HOGENOMiHOG000191978.
InParanoidiP47142.
KOiK12189.
OMAiPPFFTIQ.
OrthoDBiEOG7QRR76.

Enzyme and pathway databases

BioCyciYEAST:G3O-31730-MONOMER.
ReactomeiREACT_303262. Endosomal Sorting Complex Required For Transport (ESCRT).

Miscellaneous databases

EvolutionaryTraceiP47142.
NextBioi974328.
PROiP47142.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
1.10.10.570. 1 hit.
InterProiIPR008570. ESCRT-II_cplx_vps25-sub.
IPR014041. ESCRT-II_cplx_Vps25-sub_N.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PANTHERiPTHR13149. PTHR13149. 1 hit.
PfamiPF05871. ESCRT-II. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "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 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "Endosome-associated complex, ESCRT-II, recruits transport machinery for protein sorting at the multivesicular body."
    Babst M., Katzmann D.J., Snyder W.B., Wendland B., Emr S.D.
    Dev. Cell 3:283-289(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBUNIT, SUBCELLULAR LOCATION.
  4. "Crystal structure of subunit VPS25 of the endosomal trafficking complex ESCRT-II."
    Wernimont A.K., Weissenhorn W.
    BMC Struct. Biol. 4:10-10(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.1 ANGSTROMS), SUBUNIT.
  5. "ESCRT-II, an endosome-associated complex required for protein sorting: crystal structure and interactions with ESCRT-III and membranes."
    Teo H., Perisic O., Gonzalez B., Williams R.L.
    Dev. Cell 7:559-569(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.6 ANGSTROMS) IN COMPLEX WITH SNF8 AND VPS36.
  6. "Structure of the ESCRT-II endosomal trafficking complex."
    Hierro A., Sun J., Rusnak A.S., Kim J., Prag G., Emr S.D., Hurley J.H.
    Nature 431:221-225(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.6 ANGSTROMS) IN COMPLEX WITH SNF8 AND VPS36.

Entry informationi

Entry nameiVPS25_YEAST
AccessioniPrimary (citable) accession number: P47142
Secondary accession number(s): D6VWS1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: June 24, 2015
This is version 114 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.