Vacuolar protein sorting-associated protein 9 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P54787 (VPS9_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified December 14, 2011. Version 106. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Vacuolar protein sorting-associated protein 9

Alternative name(s):
Vacuolar protein-targeting protein 9

Gene names

Name:	VPS9
Synonyms:	VPT9
Ordered Locus Names:	YML097C

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

General annotation (Comments)

Function	Required for vacuolar protein sorting; may be required for the consumption of transport vesicles containing vacuolar protein precursors. May bind a Rab GTPase such as VPS21.
Subunit structure	Homodimer.
Subcellular location	Cytoplasm.
Domain	The CUE domain (Coupling of ubiquitin conjugation to ER degradation) is monoubiquitin-binding and is required for intramolecular ubiquitination.
Miscellaneous	Present with 4280 molecules/cell in log phase SD medium. Ref.5
Sequence similarities	Contains 1 CUE domain. Contains 1 VPS9 domain.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Cellular component	Cytoplasm
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	protein targeting to vacuole Inferred from mutant phenotype Ref.1. Source: SGD vacuole inheritance Inferred from mutant phenotype. Source: SGD
Cellular component	cytosol Inferred from direct assay Ref.1. Source: SGD
Molecular function	guanyl-nucleotide exchange factor activity Inferred from direct assay. Source: SGD ubiquitin binding Inferred from direct assay Ref.8. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 451

451

Vacuolar protein sorting-associated protein 9

PRO_0000191324

Regions

Domain

170 – 312

143

VPS9

Domain

408 – 451

CUE

Motif

229 – 237

GBH motif I

Motif

249 – 257

GBH motif II

Motif

287 – 295

GBH motif III

Compositional bias

332 – 341

Glu/Lys-rich

Amino acid modifications

Modified residue

375

Phosphoserine Ref.6

Experimental info

Sequence conflict

172

N → T in AAA62233. Ref.2

Sequence conflict

305

N → S in AAC49314. Ref.1

Sequence conflict

305

N → S in AAA62233. Ref.2

Sequence conflict

314

E → D in AAC49314. Ref.1

Sequence conflict

314

E → D in AAA62233. Ref.2

Sequence conflict

327

F → L in AAC49314. Ref.1

Sequence conflict

327

F → L in AAA62233. Ref.2

Sequence conflict

345

I → V in AAC49314. Ref.1

Sequence conflict

345

I → V in AAA62233. Ref.2

Secondary structure

451

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P54787 [UniParc].

Last modified October 5, 2010. Version 2.
Checksum: 6631766C00D3A22B
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FASTA

451

52,483

        10         20         30         40         50         60 
MTDDEKREIL KEFDPFSQLE QANGNPDKDV KFKKDDPNRA AAEETNRDIS AQDKGDEEPF 

        70         80         90        100        110        120 
YDFQIFIKQL QTPGADPLVK YTKSFLRNFL AQRLLWTVSE EIKLISDFKT FIYDKFTLYE 

       130        140        150        160        170        180 
PFRSLDNSKM RNAKEGMEKL IMGKLYSRCF SPSLYEILQK PLDDEHMKDL TNDDTLLEKI 

       190        200        210        220        230        240 
RHYRFISPIM LDIPDTMPNA RLNKFVHLAS KELGKINRFK SPRDKMVCVL NASKVIFGLL 

       250        260        270        280        290        300 
KHTKLEQNGA DSFIPVLIYC ILKGQVRYLV SNVNYIERFR SPDFIRGEEE YYLSSLQAAL 

       310        320        330        340        350        360 
NFIMNLTERS LTIEDHEDFE EAYQRNFKQL AEEKEEEEKK KQLEIPDELQ PNGTLLKPLD 

       370        380        390        400        410        420 
EVTNIVISKF NELFSPIGEP TQEEALKSEQ SNKEEDVSSL IKKIEENERK DTLNTLQNMF 

       430        440        450 
PDMDPSLIED VCIAKKSRIG PCVDALLSLS E

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A yeast protein related to a mammalian Ras-binding protein, Vps9p, is required for localization of vacuolar proteins." Burd C.G., Mustol P.A., Schu P.V., Emr S.D. Mol. Cell. Biol. 16:2369-2377(1996) [PubMed: 8628304] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"VPS9, a gene whose product is required for Golgi to vacuole trafficking, shares similarity to mammalian ras inhibitors." Whitters E.A., Piper R.C., Stevens T.H. Submitted (MAR-1995) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: SF838-9D.
[3]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII." Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T., Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S., Jagels K., Lye G., Moule S., Odell C., Pearson D., Rajandream M.A., Rice P. Barrell B.G. Nature 387:90-93(1997) [PubMed: 9169872] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[4]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"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].
[6]	"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-375, MASS SPECTROMETRY.
[7]	"Mechanism of ubiquitin recognition by the CUE domain of Vps9p." Prag G., Misra S., Jones E.A., Ghirlando R., Davies B.A., Horazdovsky B.F., Hurley J.H. Cell 113:609-620(2003) [PubMed: 12787502] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 398-451 IN COMPLEX WITH UBIQUITIN.
[8]	"A ubiquitin-binding motif required for intramolecular monoubiquitylation, the CUE domain." Shih S.C., Prag G., Francis S.A., Sutanto M.A., Hurley J.H., Hicke L. EMBO J. 22:1273-1281(2003) [PubMed: 12628920] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS) OF 398-449 IN COMPLEX WITH UBIQUITIN.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U50142 Genomic DNA. Translation: AAC49314.1.
U20373 Genomic DNA. Translation: AAA62233.1.
Z46660 Genomic DNA. Translation: CAA86640.1.
BK006946 Genomic DNA. Translation: DAA09802.1.

PIR

S49629.

RefSeq

NP_013612.1. NM_001182457.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1MN3	X-ray	2.30	A	398-451	[»]
1P3Q	X-ray	1.70	Q/R	398-451	[»]

ProteinModelPortal

P54787.

SMR

P54787. Positions 398-451.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-4526N.

IntAct

P54787. 5 interactions.

MINT

MINT-516456.

STRING

P54787.

Proteomic databases

PeptideAtlas

P54787.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YML097C; YML097C; YML097C.

GeneID

854876.

KEGG

sce:YML097C.

Organism-specific databases

SGD

S000004563. VPS9.

Phylogenomic databases

eggNOG

fuNOG05925.

GeneTree

EFGT00050000002867.

HOGENOM

HBG203498.

OMA

IEMDAKR.

OrthoDB

EOG4NW2VJ.

Gene expression databases

ArrayExpress

P54787.

Genevestigator

P54787.

GermOnline

YML097C. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR003892. CUE.
IPR009060. UBA-like.
IPR003123. VPS9.
IPR013995. VPS9_subgr.
[Graphical view]

Pfam

PF02845. CUE. 1 hit.
PF02204. VPS9. 1 hit.
[Graphical view]

SMART

SM00546. CUE. 1 hit.
SM00167. VPS9. 1 hit.
[Graphical view]

SUPFAM

SSF46934. UBA_like. 1 hit.

PROSITE

PS51140. CUE. 1 hit.
PS51205. VPS9. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

VPS9_YEAST

Accession

Primary (citable) accession number: P54787
Secondary accession number(s): D6W0I8

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	October 5, 2010
Last modified:	December 14, 2011
This is version 106 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome XIII

Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents