P47142 (VPS25_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Vacuolar protein-sorting-associated protein 25

Alternative name(s):
ESCRT-II complex subunit VPS25

Gene names

Name:	VPS25
Synonyms:	VPT25
Ordered Locus Names:	YJR102C
ORF Names:	J1957

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	202 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Ref.3
Subunit structure	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. Ref.3 Ref.4
Subcellular location	Cytoplasm. Endosome membrane; Peripheral membrane protein Ref.3.
Sequence similarities	Belongs to the VPS25 family.

Ontologies

Keywords
Biological process	Protein transport Transport
Cellular component	Cytoplasm Endosome Membrane
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	negative regulation of transcription from RNA polymerase II promoter by glucose Inferred from mutant phenotype PubMed 11278625. Source: SGD protein targeting to vacuole Inferred from mutant phenotype Ref.3. Source: SGD ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway Inferred by curator PubMed 15086794. Source: SGD
Cellular_component	ESCRT II complex Inferred from direct assay Ref.3. Source: SGD
Molecular_function	structural molecule activity Inferred from direct assay Ref.5. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
SNF8	Q12483	4	EBI-25595,EBI-30277
VPS20	Q04272	3	EBI-25595,EBI-28157

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 202

202

Vacuolar protein-sorting-associated protein 25

PRO_0000215221

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

202

Helix Strand Turn

Details...

Helix

7 – 9

3

Helix

11 – 13

3

Helix

20 – 40

21

Beta strand

45 – 47

3

Beta strand

50 – 52

3

Turn

79 – 82

4

Helix

87 – 99

13

Beta strand

102 – 111

10

Beta strand

120 – 123

4

Helix

128 – 140

13

Helix

151 – 154

4

Turn

164 – 167

4

Helix

170 – 181

12

Helix

182 – 184

3

Beta strand

187 – 190

4

Beta strand

196 – 200

5

Sequences

	Sequence		Length	Mass (Da)
	P47142 [UniParc]. Last modified February 1, 1996. Version 1. Checksum: 6A4545A8BC772CA2	FASTA	202	23,558
	10 20 30 40 50 60 MSALPPVYSF PPLYTRQPNS LTRRQQISTW IDIISQYCKT KKIWYMSVDG TVINDNELDS 70 80 90 100 110 120 GSTDNDDSKK ISKNLFNNED IQRSVSQVFI DEIWSQMTKE GKCLPIDQSG RRSSNTTTTR 130 140 150 160 170 180 YFILWKSLDS WASLILQWFE DSGKLNQVIT LYELSEGDET VNWEFHRMPE SLLYYCLKPL 190 200 CDRNRATMLK DENDKVIAIK VV

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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 96604 / S288c / FY1679.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases 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.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

Z49602 Genomic DNA. Translation: CAA89632.1.
BK006943 Genomic DNA. Translation: DAA08887.1.

PIR

S57123.

RefSeq

NP_012636.1. NM_001181760.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1U5T	X-ray	3.60	C/D	1-202	[»]
1W7P	X-ray	3.60	B/C	1-202	[»]
1XB4	X-ray	3.10	A/B/C/D	1-202	[»]

ProteinModelPortal

P47142.

SMR

P47142. Positions 1-199.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-4446N.

IntAct

P47142. 6 interactions.

MINT

MINT-486583.

STRING

4932.YJR102C.

Proteomic databases

PaxDb

P47142.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YJR102C; YJR102C; YJR102C.

GeneID

853566.

KEGG

sce:YJR102C.

Organism-specific databases

CYGD

YJR102c.

SGD

S000003863. VPS25.

Phylogenomic databases

eggNOG

NOG270942.

GeneTree

ENSGT00390000014892.

HOGENOM

HOG000191978.

KO

K12189.

OMA

PPFFTIQ.

OrthoDB

EOG4J40SJ.

Gene expression databases

Genevestigator

P47142.

GermOnline

YJR102C. Saccharomyces cerevisiae.

Family and domain databases

Gene3D

1.10.10.10. 1 hit.
1.10.10.570. 1 hit.

InterPro

IPR008570. ESCRT-II_cplx_vps25-sub.
IPR014041. ESCRT-II_cplx_Vps25-sub_N.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]

PANTHER

PTHR13149. PTHR13149. 1 hit.

Pfam

PF05871. ESCRT-II. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P47142.

NextBio

974328.

Entry information

Entry name

VPS25_YEAST

Accession

Primary (citable) accession number: P47142
Secondary accession number(s): D6VWS1

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1996
Last sequence update:	February 1, 1996
Last modified:	May 1, 2013
This is version 97 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program