Q92331 (VPS5_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Vacuolar protein sorting-associated protein 5

Alternative name(s):
Carboxypeptidase Y-deficient protein 10
Vacuolar protein-targeting protein 5

Gene names

Name:	VPS5
Synonyms:	GRD2, PEP10, VPT5
Ordered Locus Names:	YOR069W
ORF Names:	YOR29-20

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	675 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Plays a role in vesicular protein sorting. Required for retention of late Golgi membrane proteins and vacuolar biogenesis. Component of the membrane-associated retromer complex which is essential in endosome-to-Golgi retrograde transport. The VPS5-VPS17 subcomplex may assemble onto the membrane to promote vesicle formation.
Subunit structure	Component of the retromer complex which consists of VPS29, VPS26, VPS35, VPS5 and VPS17. Component of a retromer subcomplex consisting of VPSD5 and VPS17.
Subcellular location	Cytoplasm. Golgi apparatus membrane; Peripheral membrane protein; Cytoplasmic side Potential. Endosome membrane; Peripheral membrane protein; Cytoplasmic side Potential.
Domain	The PX domain binds phosphatidylinositol 3-phosphate which is necessary for peripheral membrane localization By similarity.
Post-translational modification	Phosphorylated on serine residue(s). Ref.9 Ref.10
Miscellaneous	Present with 6120 molecules/cell in log phase SD medium. Ref.8
Sequence similarities	Belongs to the sorting nexin family. Contains 1 PX (phox homology) domain.
Sequence caution	The sequence CAA94554.1 differs from that shown. Reason: Frameshift at position 13. The sequence CAA99262.1 differs from that shown. Reason: Erroneous initiation. The sequence Z74976 differs from that shown. Reason: Frameshift at position 13.

Ontologies

Keywords
Biological process	Protein transport Transport
Cellular component	Cytoplasm Endosome Golgi apparatus Membrane
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	cell communication Inferred from electronic annotation. Source: InterPro protein retention in Golgi apparatus Inferred from mutant phenotype. Source: SGD protein transport Inferred from mutant phenotype Ref.7. Source: GOC retrograde transport, endosome to Golgi Inferred from physical interaction Ref.7. Source: SGD
Cellular component	Golgi membrane Inferred from electronic annotation. Source: UniProtKB-SubCell cytosol Inferred from direct assay Ref.1. Source: SGD endosome membrane Inferred from electronic annotation. Source: UniProtKB-SubCell retromer complex, outer shell Inferred from physical interaction Ref.7. Source: SGD
Molecular function	phosphatidylinositol-3-phosphate binding Inferred from direct assay. Source: SGD protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
VPS17	P32913	7	EBI-20483,EBI-20366
VPS35	P34110	3	EBI-20483,EBI-20415

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 675	675	Vacuolar protein sorting-associated protein 5		PRO_0000213804
Regions
	Domain	279 – 394	116	PX
Sites
	Binding site	320	1	Phosphatidylinositol 3-phosphate By similarity
	Binding site	346	1	Phosphatidylinositol 3-phosphate By similarity
	Binding site	360	1	Phosphatidylinositol 3-phosphate By similarity
Amino acid modifications
	Modified residue	37	1	Phosphoserine Ref.10
	Modified residue	142	1	Phosphoserine Ref.10
	Modified residue	184	1	Phosphoserine Ref.9
	Modified residue	252	1	Phosphoserine Ref.9
Experimental info
	Sequence conflict	376	1	V → A in AAS56361. Ref.6

Sequences

	Sequence		Length	Mass (Da)
	Q92331 [UniParc]. Last modified February 1, 1997. Version 1. Checksum: FBBA994EADBDC2BD	FASTA	675	76,484
	10 20 30 40 50 60 MDYEDNLEAP VWDELNHEGD KTQSLVSNSI ESIGQISTNE ERKDNELLET TASFADKIDL 70 80 90 100 110 120 DSAPEWKDPG LSVAGNPQLE EHDNSKADDL INSLAPEQDP IADLKNSTTQ FIATRESGGA 130 140 150 160 170 180 LFTGNANSPL VFDDTIYDAN TSPNTSKSIS GRRSGKPRIL FDSARAQRNS KRNHSLKAKR 190 200 210 220 230 240 TTASDDTIKT PFTDPLKKAE KENEFVEEPL DDRNERRENN EGKFTASVEK NILEQVDRPL 250 260 270 280 290 300 YNLPQTGANI SSPAEVEENS EKFGKTKIGS KVPPTEKAVA FKVEVKDPVK VGELTSIHVE 310 320 330 340 350 360 YTVISESSLL ELKYAQVSRR YRDFRWLYRQ LQNNHWGKVI PPPPEKQSVG SFKENFIENR 370 380 390 400 410 420 RFQMESMLKK ICQDPVLQKD KDFLLFLTSD DFSSESKKRA FLTGSGAIND SNDLSEVRIS 430 440 450 460 470 480 EIQLLGAEDA AEVLKNGGID AESHKGFMSI SFSSLPKYNE ADEFFIEKKQ KIDELEDNLK 490 500 510 520 530 540 KLSKSLEMVD TSRNTLAAST EEFSSMVETL ASLNVSEPNS ELLNNFADVH KSIKSSLERS 550 560 570 580 590 600 SLQETLTMGV MLDDYIRSLA SVKAIFNQRS KLGYFLVVIE NDMNKKHSQL GKLGQNIHSE 610 620 630 640 650 660 KFREMRKEFQ TLERRYNLTK KQWQAVGDKI KDEFQGFSTD KIREFRNGME ISLEAAIESQ 670 KECIELWETF YQTNL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The yeast VPS5/GRD2 gene encodes a sorting nexin-1-like protein required for localizing membrane proteins to the late Golgi." Nothwehr S.F., Hindes A.E. J. Cell Sci. 110:1063-1072(1997) [PubMed: 9175702] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"A sorting nexin-1 homologue, Vps5p, forms a complex with Vps17p and is required for recycling the vacuolar protein-sorting receptor." Horazdovsky B.F., Davies B.A., Seaman M.N.J., McLaughlin S.A., Yoon S., Emr S.D. Mol. Biol. Cell 8:1529-1541(1997) [PubMed: 9285823] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"The sequence of a 54.7 kb fragment of yeast chromosome XV reveals the presence of two tRNAs and 24 new open reading frames." Valens M., Bohn C., Daignan-Fornier B., Dang V.-D., Bolotin-Fukuhara M. Yeast 13:379-390(1997) [PubMed: 9133743] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[4]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XV." Dujon B., Albermann K., Aldea M., Alexandraki D., Ansorge W., Arino J., Benes V., Bohn C., Bolotin-Fukuhara M., Bordonne R., Boyer J., Camasses A., Casamayor A., Casas C., Cheret G., Cziepluch C., Daignan-Fornier B., Dang V.-D. , de Haan M., Delius H., Durand P., Fairhead C., Feldmann H., Gaillon L., Galisson F., Gamo F.-J., Gancedo C., Goffeau A., Goulding S.E., Grivell L.A., Habbig B., Hand N.J., Hani J., Hattenhorst U., Hebling U., Hernando Y., Herrero E., Heumann K., Hiesel R., Hilger F., Hofmann B., Hollenberg C.P., Hughes B., Jauniaux J.-C., Kalogeropoulos A., Katsoulou C., Kordes E., Lafuente M.J., Landt O., Louis E.J., Maarse A.C., Madania A., Mannhaupt G., Marck C., Martin R.P., Mewes H.-W., Michaux G., Paces V., Parle-McDermott A.G., Pearson B.M., Perrin A., Pettersson B., Poch O., Pohl T.M., Poirey R., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rechmann S., Schwager C., Schweizer M., Sor F., Sterky F., Tarassov I.A., Teodoru C., Tettelin H., Thierry A., Tobiasch E., Tzermia M., Uhlen M., Unseld M., Valens M., Vandenbol M., Vetter I., Vlcek C., Voet M., Volckaert G., Voss H., Wambutt R., Wedler H., Wiemann S., Winsor B., Wolfe K.H., Zollner A., Zumstein E., Kleine K. Nature 387:98-102(1997) [PubMed: 9169874] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[5]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[6]	"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: 17322287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 364-675. Strain: ATCC 204508 / S288c.
[7]	"A membrane coat complex essential for endosome-to-Golgi retrograde transport in yeast." Seaman M.N., McCaffery J.M., Emr S.D. J. Cell Biol. 142:665-681(1998) [PubMed: 9700157] [Abstract] Cited for: IDENTIFICATION IN THE RETROMER COMPLEX.
[8]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[9]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-184 AND SER-252, MASS SPECTROMETRY.
[10]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-37 AND SER-142, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U73512 Genomic DNA. Translation: AAB62976.1. U84735 Genomic DNA. Translation: AAB41798.1. Z70678 Genomic DNA. Translation: CAA94554.1. Frameshift. Z74976 Genomic DNA. No translation available. Z74977 Genomic DNA. Translation: CAA99262.1. Different initiation. AY558035 Genomic DNA. Translation: AAS56361.1. BK006948 Genomic DNA. Translation: DAA10847.1.
PIR	S66952.
RefSeq	NP_014712.2. NM_001183488.1.
3D structure databases
ProteinModelPortal	Q92331.
SMR	Q92331. Positions 279-391.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-1740N.
IntAct	Q92331. 44 interactions.
MINT	MINT-391689.
STRING	Q92331.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YOR069W; YOR069W; YOR069W.
GeneID	854235.
KEGG	sce:YOR069W.
NMPDR	fig|4932.3.peg.5811.
Organism-specific databases
CYGD	YOR069w.
SGD	S000005595. VPS5.
Phylogenomic databases
eggNOG	fuNOG05443.
GeneTree	EFGT00050000002717.
HOGENOM	HBG202827.
OrthoDB	EOG4W11NH.
Gene expression databases
ArrayExpress	Q92331.
Genevestigator	Q92331.
GermOnline	YOR069W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR001683. Phox. IPR015404. Vps5_C. [Graphical view]
Gene3D	G3DSA:3.30.1520.10. PX. 1 hit.
Pfam	PF00787. PX. 1 hit. PF09325. Vps5. 1 hit. [Graphical view]
SMART	SM00312. PX. 1 hit. [Graphical view]
SUPFAM	SSF64268. PX. 1 hit.
PROSITE	PS50195. PX. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	976127.

Entry information

Entry name

VPS5_YEAST

Accession

Primary (citable) accession number: Q92331
Secondary accession number(s): D6W2D1, E9P8U6, Q08483

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	February 1, 1997
Last modified:	December 14, 2011
This is version 100 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program