Q04311 (VMS1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Protein VMS1

Alternative name(s):
VCP/CDC48-associated mitochondrial stress-responsive protein 1

Gene names

Name:	VMS1
Ordered Locus Names:	YDR049W

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

General annotation (Comments)

Function	Involved in the endoplasmic reticulum (ER)-associated degradation (ERAD) pathway. Component of an evolutionarily conserved system for ubiquitin-mediated mitochondria-associated protein degradation (MAD), which is necessary to maintain mitochondrial, cellular, and organismal viability. Ref.7 Ref.8
Subunit structure	Interacts with CDC48 and NPL4. Ref.7 Ref.8
Subcellular location	Cytoplasm. Mitochondrion. Endoplasmic reticulum membrane; Peripheral membrane protein. Note: translocates from the cytosol to mitochondria upon mitochondrial stress. Ref.5 Ref.7 Ref.8
Disruption phenotype	Leads to progressive mitochondrial failure, hypersensitivity to oxidative stress, and decreased chronological life span. Ref.7
Miscellaneous	Present with 3930 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the ANKZF1/VMS1 family. Contains 2 ANK repeats. Contains 1 C2H2-type zinc finger.

Ontologies

Keywords
Cellular component	Cytoplasm Endoplasmic reticulum Membrane Mitochondrion
Domain	ANK repeat Coiled coil Repeat Zinc-finger
Ligand	Metal-binding Zinc
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	ER-associated protein catabolic process Inferred from mutant phenotype Ref.8. Source: SGD mitochondria-associated protein catabolic process Inferred from mutant phenotype Ref.7. Source: SGD nucleus-associated proteasomal ubiquitin-dependent protein catabolic process Inferred from mutant phenotype PubMed 22718752. Source: SGD
Cellular_component	Cdc48p-Npl4p-Vms1p AAA ATPase complex Inferred from direct assay Ref.7. Source: SGD cytosol Inferred from direct assay Ref.7. Source: SGD endoplasmic reticulum membrane Inferred from direct assay Ref.8. Source: SGD
Molecular_function	zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 632	632	Protein VMS1		PRO_0000244435
Regions
	Repeat	470 – 500	31	ANK 1
	Repeat	504 – 530	27	ANK 2
	Zinc finger	72 – 96	25	C2H2-type
	Coiled coil	544 – 582	39	Potential
	Coiled coil	608 – 632	25	Potential
Experimental info
	Sequence conflict	170	1	K → E in AAU09687. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Q04311 [UniParc]. Last modified November 1, 1996. Version 1. Checksum: 98A2007E5591A220	FASTA	632	72,733
	10 20 30 40 50 60 MNSQKASKMT GSLKKNDLYI FDLSEQLLNS LKLMSFDSTL REVEVEKTSD NDRNKESGDL 70 80 90 100 110 120 QIARKKVTSN VMRCSVCQMS FDSRNEQKAH YQTDYHLMNV KRNLRGLDIL SVEEFDALIS 130 140 150 160 170 180 KEHGIKSEDE NSGGEQTSSD HEESEEASDR DPDLQTNNYM ETIIENDLQK LGFQKDESDA 190 200 210 220 230 240 ISHINTQSPY IYFKSKYLQK NEVLAIYKSL FNKRSLSNPN EALTFWNSQE NPMAISALFM 250 260 270 280 290 300 VGGGHFAGAI VSHQRLNVKG NAHKKDETLI EQAVNFLEHK TFHRYTTRRK QGGSQSAMDN 310 320 330 340 350 360 AKGKANSAGS ALRRYNESAL KTDIQGVLKD WEPYLSKCDN IFIRARNVSD KKIFTDNTVL 370 380 390 400 410 420 NKGDERIKSF PFTTNRPTVL ELKKAWCELS YLKILPKPEP LAVKETVQKL EVSNKKDEFK 430 440 450 460 470 480 EKQEPLLEEI QTEEIISLLK KGRAPLLISF LKKNKLDGNF RLKPESKYSL TPTMLHYASQ 490 500 510 520 530 540 QGMKQMALIL LSNIKCDPTI KNRLGRTAWD LNRNDDVRHA FQIARYNLGE SFTNWDETHI 550 560 570 580 590 600 GQPLSREQVD EINEKKKAIE NEKAEKLIKL ELEAAKEKQR FAKDAERGPG KKLTNIPSIQ 610 620 630 QQNLNSLTDE QRRRLMREQR ARAAEERMKK KY

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"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. , 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.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"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] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	"Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins." Boehm S., Frishman D., Mewes H.-W. Nucleic Acids Res. 25:2464-2469(1997) [PubMed] [Europe PMC] [Abstract] Cited for: DOMAIN.
[5]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[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]	"A stress-responsive system for mitochondrial protein degradation." Heo J.M., Livnat-Levanon N., Taylor E.B., Jones K.T., Dephoure N., Ring J., Xie J., Brodsky J.L., Madeo F., Gygi S.P., Ashrafi K., Glickman M.H., Rutter J. Mol. Cell 40:465-480(2010) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION, DISRUPTION PHENOTYPE, FUNCTION, INTERACTION WITH CDC48 AND NPL4.
[8]	"A Cdc48p-associated factor modulates endoplasmic reticulum-associated degradation, cell stress, and ubiquitinated protein homeostasis." Tran J.R., Tomsic L.R., Brodsky J.L. J. Biol. Chem. 286:5744-5755(2011) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION, FUNCTION, INTERACTION WITH CDC48.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z49209 Genomic DNA. Translation: CAA89079.1. AY723770 Genomic DNA. Translation: AAU09687.1. BK006938 Genomic DNA. Translation: DAA11896.1.
PIR	S54034.
RefSeq	NP_010334.1. NM_001180357.1.
3D structure databases
ProteinModelPortal	Q04311.
SMR	Q04311. Positions 473-512.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-6303N.
IntAct	Q04311. 3 interactions.
MINT	MINT-649064.
STRING	4932.YDR049W.
Proteomic databases
PaxDb	Q04311.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YDR049W; YDR049W; YDR049W.
GeneID	851618.
KEGG	sce:YDR049W.
Organism-specific databases
CYGD	YDR049w.
SGD	S000002456. VMS1.
Phylogenomic databases
eggNOG	NOG323124.
GeneTree	ENSGT00390000005911.
OMA	RYNELAL.
OrthoDB	EOG4DJP55.
Gene expression databases
Genevestigator	Q04311.
GermOnline	YDR049W. Saccharomyces cerevisiae.
Family and domain databases
Gene3D	1.25.40.20. 1 hit.
InterPro	IPR020683. Ankyrin_rpt-contain_dom. IPR007087. Znf_C2H2. IPR015880. Znf_C2H2-like. [Graphical view]
SMART	SM00355. ZnF_C2H2. 1 hit. [Graphical view]
SUPFAM	SSF48403. ANK. 1 hit.
PROSITE	PS50297. ANK_REP_REGION. False negative. PS50088. ANK_REPEAT. False negative. PS00028. ZINC_FINGER_C2H2_1. 1 hit. PS50157. ZINC_FINGER_C2H2_2. False negative. [Graphical view]
ProtoNet	Search...
Other
NextBio	969148.

Entry information

Entry name

VMS1_YEAST

Accession

Primary (citable) accession number: Q04311
Secondary accession number(s): D6VS36, Q66RH0

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 27, 2006
Last sequence update:	November 1, 1996
Last modified:	May 1, 2013
This is version 94 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program