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P38959 (VPS41_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 137. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Vacuolar protein sorting-associated protein 41
Alternative name(s):
Vacuolar morphogenesis protein 2
Gene names
Name:VPS41
Synonyms:FET2, VAM2
Ordered Locus Names:YDR080W
ORF Names:D446, YD8554.13
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length992 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Required for vacuolar assembly and vacuolar traffic. Acts as component of the HOPS complex that acts during the docking stage of vacuole fusion. HOPS is an effector for the vacuolar Rab GTPase YPT7 and is required for vacuolar SNARE complex assembly. It remains bound to SNARE complexes after vacuole fusion. Ref.7

Subunit structure

Component of the HOPS complex which is composed of PEP5, VPS16, PEP3, VPS33, VPS39 and VPS41. HOPS associates with phosphoinositides and the PX domain of VAM7. Interacts with VAM7 and VPS39. Ref.7

Subcellular location

Vacuole Probable.

Miscellaneous

Present with 1170 molecules/cell in log phase SD medium.

Sequence similarities

Belongs to the VPS41 family.

Contains 1 CHCR (clathrin heavy-chain) repeat.

Contains 5 WD repeats.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

VPS33P207955EBI-20432,EBI-20395

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 992992Vacuolar protein sorting-associated protein 41
PRO_0000212827

Regions

Repeat114 – 15239WD 1
Repeat153 – 19240WD 2
Repeat194 – 23441WD 3
Repeat240 – 28041WD 4
Repeat324 – 36643WD 5
Repeat753 – 901149CHCR
Compositional bias79 – 9416Poly-Asp
Compositional bias239 – 2446Poly-Lys

Amino acid modifications

Modified residue261Phosphoserine Ref.8
Modified residue531Phosphoserine Ref.8

Experimental info

Sequence conflict4241K → M in CAA57607. Ref.2

Sequences

Sequence LengthMass (Da)Tools
P38959 [UniParc].

Last modified November 1, 1997. Version 2.
Checksum: E1E48B4D5A1A4005

FASTA992113,412
        10         20         30         40         50         60 
MTTDNHQNDS VLDQQSGERT IDESNSISDE NNVDNKREDV NVTSPTKSVS CISQAENGVA 

        70         80         90        100        110        120 
SRTDESTITG SATDAETGDD DDDDDDDDDE DEDDEDEPPL LKYTRISQLP KNFFQRDSIS 

       130        140        150        160        170        180 
SCLFGDTFFA FGTHSGILHL TTCAFEPIKT IKCHRSSILC INTDGKYFAT GSIDGTVIIG 

       190        200        210        220        230        240 
SMDDPQNITQ YDFKRPINSV ALHSNFQASR MFVSGGMAGD VVLSQRNWLG NRIDIVLNKK 

       250        260        270        280        290        300 
KKKKTRKDDL SSDMKGPIMG IYTMGDLILW MDDDGITFCD VPTRSQLLNI PFPSRIFNVQ 

       310        320        330        340        350        360 
DVRPDLFRPH VHFLESDRVV IGWGSNIWLF KVSFTKDSNS IKSGDSNSQS NNMSHFNPTT 

       370        380        390        400        410        420 
NIGSLLSSAA SSFRGTPDKK VELECHFTVS MLITGLASFK DDQLLCLGFD IDIEEEATID 

       430        440        450        460        470        480 
EDMKEGKNFS KRPENLLAKG NAPELKIVDL FNGDEIYNDE VIMKNYEKLS INDYHLGKHI 

       490        500        510        520        530        540 
DKTTPEYYLI SSNDAIRVQE LSLKDHFDWF MERKQYYKAW KIGKYVIGSE ERFSIGLKFL 

       550        560        570        580        590        600 
NSLVTKKDWG TLVDHLNIIF EETLNSLDSN SYDVTQNVLK EWADIIEILI TSGNIVEIAP 

       610        620        630        640        650        660 
LIPKKPALRK SVYDDVLHYF LANDMINKFH EYITKWDLKL FSVEDFEEEL ETRIEAASEP 

       670        680        690        700        710        720 
TASSKEEGSN ITYRTELVHL YLKENKYTKA IPHLLKAKDL RALTIIKIQN LLPQYLDQIV 

       730        740        750        760        770        780 
DIILLPYKGE ISHISKLSIF EIQTIFNKPI DLLFENRHTI SVARIYEIFE HDCPKSFKKI 

       790        800        810        820        830        840 
LFCYLIKFLD TDDSFMISPY ENQLIELYSE YDRQSLLPFL QKHNNYNVES AIEVCSSKLG 

       850        860        870        880        890        900 
LYNELIYLWG KIGETKKALS LIIDELKNPQ LAIDFVKNWG DSELWEFMIN YSLDKPNFTK 

       910        920        930        940        950        960 
AILTCSDETS EIYLKVIRGM SDDLQIDNLQ DIIKHIVQEN SLSLEVRDNI LVIINDETKK 

       970        980        990 
FANEFLKIRS QGKLFQVDES DIEINDDLNG VL 

« Hide

References

« Hide 'large scale' references
[1]"Vam2/Vps41p and Vam6/Vps39p are components of a protein complex on the vacuolar membranes and involved in the vacuolar assembly in the yeast Saccharomyces cerevisiae."
Nakamura N., Hirata A., Ohsumi Y., Wada Y.
J. Biol. Chem. 272:11344-11349(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 26786 / X2180-1A.
[2]"Analysis of a 32.8 kb segment of yeast chromosome IV reveals 21 open reading frames, including TPS2, PPH3, RAD55, SED1, PDC2, AFR1, SSS1, SLU7 and a tRNA for arginine."
Coster F., Jonniaux J.-L., Goffeau A.
Yeast 11:673-679(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 96604 / S288c / FY1679.
[3]"The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T. expand/collapse author list , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[4]Saccharomyces Genome Database
Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: ATCC 204508 / S288c.
[5]"Characterization of VPS41, a gene required for vacuolar trafficking and high-affinity iron transport in yeast."
Radisky D.C., Snyder W.B., Emr S.D., Kaplan J.
Proc. Natl. Acad. Sci. U.S.A. 94:5662-5666(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: CHARACTERIZATION.
[6]"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] [Europe PMC] [Abstract]
Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[7]"Purification of active HOPS complex reveals its affinities for phosphoinositides and the SNARE Vam7p."
Stroupe C., Collins K.M., Fratti R.A., Wickner W.
EMBO J. 25:1579-1589(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION IN THE HOPS COMPLEX, FUNCTION OF THE HOPS COMPLEX, INTERACTION WITH VAM7.
[8]"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] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-26 AND SER-53, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[9]"Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB000223 Genomic DNA. Translation: BAA19071.1.
X82086 Genomic DNA. Translation: CAA57607.1.
Z74376 Genomic DNA. Translation: CAA98899.1.
Z46796 Genomic DNA. Translation: CAA86802.1.
BK006938 Genomic DNA. Translation: DAA11927.1.
PIRS49835.
RefSeqNP_010365.3. NM_001180388.3.

3D structure databases

ProteinModelPortalP38959.
SMRP38959. Positions 152-222.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid32136. 220 interactions.
DIPDIP-834N.
IntActP38959. 12 interactions.
MINTMINT-615238.
STRING4932.YDR080W.

Proteomic databases

PaxDbP38959.
PeptideAtlasP38959.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYDR080W; YDR080W; YDR080W.
GeneID851653.
KEGGsce:YDR080W.

Organism-specific databases

CYGDYDR080w.
SGDS000002487. VPS41.

Phylogenomic databases

eggNOGNOG285467.
GeneTreeENSGT00390000000481.
HOGENOMHOG000141972.
OMAYHAHSAS.
OrthoDBEOG7S2265.

Enzyme and pathway databases

BioCycYEAST:G3O-29685-MONOMER.

Gene expression databases

GenevestigatorP38959.

Family and domain databases

Gene3D1.25.40.10. 1 hit.
2.130.10.10. 1 hit.
InterProIPR000547. Clathrin_H-chain/VPS_repeat.
IPR011990. TPR-like_helical.
IPR016902. VPS41.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamPF00637. Clathrin. 1 hit.
PF00400. WD40. 1 hit.
[Graphical view]
PIRSFPIRSF028921. VPS41. 1 hit.
SMARTSM00299. CLH. 1 hit.
SM00320. WD40. 2 hits.
[Graphical view]
SUPFAMSSF50978. SSF50978. 1 hit.
PROSITEPS50236. CHCR. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio969245.
PROP38959.

Entry information

Entry nameVPS41_YEAST
AccessionPrimary (citable) accession number: P38959
Secondary accession number(s): D6VS67, P87334, Q12011
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: November 1, 1997
Last modified: April 16, 2014
This is version 137 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome IV

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

Yeast

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

SIMILARITY comments

Index of protein domains and families