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P36037

- DOA1_YEAST

UniProt

P36037 - DOA1_YEAST

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Protein
Protein DOA1
Gene
DOA1, UFD3, ZZZ4, YKL213C
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Participates in the regulation of the ubiquitin conjugation pathway involving CDC48 by hindering multiubiquitination of substrates at the CDC48 chaperone. May act by preventing the interaction between CDC48 and the E4 enzyme UFD2, leading to prevent multiubiquitination of substrates and subsequent degradation. Essential for maintaining cellular ubiquitin levels.2 Publications

GO - Molecular functioni

  1. protein binding Source: IntAct
  2. ubiquitin binding Source: SGD
Complete GO annotation...

GO - Biological processi

  1. double-strand break repair via nonhomologous end joining Source: SGD
  2. ubiquitin homeostasis Source: SGD
  3. ubiquitin-dependent protein catabolic process Source: SGD
Complete GO annotation...

Keywords - Biological processi

Ubl conjugation pathway

Enzyme and pathway databases

BioCyciYEAST:G3O-31971-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein DOA1
Gene namesi
Name:DOA1
Synonyms:UFD3, ZZZ4
Ordered Locus Names:YKL213C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome XI

Organism-specific databases

CYGDiYKL213c.
SGDiS000001696. DOA1.

Subcellular locationi

Nucleus. Cytoplasm 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi541 – 5411R → A: Depletion of cellular ubiquitin pools and reduced activity of the ubiquitin fusion degradation pathway. 1 Publication
Mutagenesisi669 – 6691R → A: Depletion of cellular ubiquitin pools and reduced activity of the ubiquitin fusion degradation pathway. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 715715Protein DOA1
PRO_0000050958Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei332 – 3321Phosphoserine2 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP36037.
PaxDbiP36037.
PeptideAtlasiP36037.

Expressioni

Gene expression databases

GenevestigatoriP36037.

Interactioni

Subunit structurei

Interacts with CDC48, OTU1 and ubiquitin.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CDC48P256945EBI-6017,EBI-4308
HSE1P387533EBI-6017,EBI-1382
UBP3Q014774EBI-6017,EBI-19834

Protein-protein interaction databases

BioGridi33952. 437 interactions.
DIPiDIP-6274N.
IntActiP36037. 9 interactions.
MINTiMINT-606421.
STRINGi4932.YKL213C.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 96
Beta strandi16 – 238
Beta strandi26 – 316
Beta strandi34 – 5219
Beta strandi57 – 637
Turni64 – 674
Beta strandi68 – 736
Beta strandi78 – 825
Beta strandi102 – 1087
Beta strandi111 – 1166
Beta strandi119 – 1257
Beta strandi128 – 1347
Beta strandi140 – 1478
Turni148 – 1514
Beta strandi152 – 1576
Beta strandi162 – 1665
Beta strandi169 – 1746
Beta strandi182 – 1898
Beta strandi192 – 1976
Beta strandi200 – 2067
Turni207 – 2093
Beta strandi212 – 2176
Beta strandi223 – 2286
Beta strandi234 – 2385
Beta strandi241 – 2466
Turni248 – 2503
Beta strandi253 – 2586
Beta strandi260 – 2623
Beta strandi264 – 2696
Beta strandi275 – 2795
Beta strandi284 – 2896
Helixi291 – 2933
Beta strandi378 – 3803
Beta strandi383 – 3919
Beta strandi400 – 4045
Helixi410 – 42011
Helixi425 – 4273
Helixi428 – 43811
Helixi480 – 49415
Helixi499 – 50911
Helixi512 – 52918
Helixi534 – 54310
Helixi544 – 5463
Helixi550 – 5534
Helixi554 – 5607
Helixi566 – 57914
Turni583 – 5853
Helixi586 – 5905
Helixi593 – 5964
Helixi599 – 6024
Beta strandi608 – 6103
Helixi612 – 63423
Helixi642 – 65110
Turni652 – 6565
Helixi658 – 6625
Helixi664 – 68017
Helixi682 – 6854
Turni688 – 6903
Helixi692 – 70110
Helixi705 – 71410

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3GAEX-ray1.60A/B464-715[»]
3L3FX-ray1.90X354-715[»]
3ODTX-ray1.35A/B2-300[»]
3PSPX-ray2.42A325-715[»]
3PSTX-ray2.00A325-715[»]
ProteinModelPortaliP36037.
SMRiP36037. Positions 2-295, 376-715.

Miscellaneous databases

EvolutionaryTraceiP36037.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati11 – 4030WD 1
Add
BLAST
Repeati53 – 8230WD 2
Add
BLAST
Repeati97 – 12529WD 3
Add
BLAST
Repeati135 – 16632WD 4
Add
BLAST
Repeati177 – 20630WD 5
Add
BLAST
Repeati218 – 24730WD 6
Add
BLAST
Repeati259 – 28830WD 7
Add
BLAST
Domaini352 – 44998PFU
Add
BLAST
Domaini465 – 715251PUL
Add
BLAST
Repeati478 – 51235ARM 1
Add
BLAST
Repeati513 – 54331ARM 2
Add
BLAST
Repeati544 – 58239ARM 3
Add
BLAST
Repeati583 – 63553ARM 4
Add
BLAST
Repeati636 – 68045ARM 5
Add
BLAST
Repeati681 – 71535ARM 6
Add
BLAST

Domaini

The PUL domain is composed of 6 armadillo-like repeats and mediates the interaction with CDC48 C-terminus.
The PFU domain mediates interaction with ubiquitin.

Sequence similaritiesi

Belongs to the WD repeat PLAP family.
Contains 6 ARM repeats.
Contains 1 PFU domain.
Contains 1 PUL domain.
Contains 7 WD repeats.

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00550000074944.
HOGENOMiHOG000174247.
KOiK14018.
OMAiPAYDIVR.
OrthoDBiEOG7FR7QW.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR016024. ARM-type_fold.
IPR020472. G-protein_beta_WD-40_rep.
IPR015155. PLAA_fam_Ub-bd_PFU.
IPR013535. PUL.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF09070. PFU. 1 hit.
PF08324. PUL. 1 hit.
PF00400. WD40. 5 hits.
[Graphical view]
PRINTSiPR00320. GPROTEINBRPT.
SMARTiSM00320. WD40. 6 hits.
[Graphical view]
SUPFAMiSSF48371. SSF48371. 1 hit.
SSF50978. SSF50978. 1 hit.
PROSITEiPS51394. PFU. 1 hit.
PS51396. PUL. 1 hit.
PS50082. WD_REPEATS_2. 4 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P36037-1 [UniParc]FASTAAdd to Basket

« Hide

MGYQLSATLK GHDQDVRDVV AVDDSKVASV SRDGTVRLWS KDDQWLGTVV    50
YTGQGFLNSV CYDSEKELLL FGGKDTMING VPLFATSGED PLYTLIGHQG 100
NVCSLSFQDG VVISGSWDKT AKVWKEGSLV YNLQAHNASV WDAKVVSFSE 150
NKFLTASADK TIKLWQNDKV IKTFSGIHND VVRHLAVVDD GHFISCSNDG 200
LIKLVDMHTG DVLRTYEGHE SFVYCIKLLP NGDIVSCGED RTVRIWSKEN 250
GSLKQVITLP AISIWSVDCM SNGDIIVGSS DNLVRIFSQE KSRWASEDEI 300
NELSTQVEKS TISSKTIEFD ESKLSPYEIL QSPGRKEGQI VVVKSPQGTI 350
EAHQFSNSSW KKVGDVVGAG ATGNDKKIEF EGKTYDYVFD VDIEDGKPPL 400
KLPINVSDNP YTAADNFLAR YELPMSYRDQ VVQFILKNTN GISLDQPNDN 450
ASSSAVSPSK TSVMKVLPVK QYLIMENYNP DTIFNGIVKI NSNEKTFDDE 500
ILAQIGGALH DIDESWELLL SFANTIRSNW EIKTPAYDIV RLIVKKLPYS 550
SDIKDYIEEG LGNKNITLTM LTVRILVNCF NNENWGVKLL ESNQVYKSIF 600
ETIDTEFSQA SAKQSQNLAI AVSTLIFNYS ALVTKGNSDL ELLPIVADAI 650
NTKYGPLEEY QECEEAAYRL TVAYGNLATV EPTLRQFANS VTWLANIKRS 700
YGNVPRFKDI FDDLS 715
Length:715
Mass (Da):79,506
Last modified:June 1, 1994 - v1
Checksum:i593B808169283B5F
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti180 – 1801D → DI AA sequence 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U39947 Genomic DNA. Translation: AAA82258.1.
X75951 Genomic DNA. Translation: CAA53560.1.
Z28213 Genomic DNA. Translation: CAA82058.1.
BK006944 Genomic DNA. Translation: DAA08956.1.
PIRiS38051.
RefSeqiNP_012709.1. NM_001179778.1.

Genome annotation databases

EnsemblFungiiYKL213C; YKL213C; YKL213C.
GeneIDi853667.
KEGGisce:YKL213C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
U39947 Genomic DNA. Translation: AAA82258.1 .
X75951 Genomic DNA. Translation: CAA53560.1 .
Z28213 Genomic DNA. Translation: CAA82058.1 .
BK006944 Genomic DNA. Translation: DAA08956.1 .
PIRi S38051.
RefSeqi NP_012709.1. NM_001179778.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3GAE X-ray 1.60 A/B 464-715 [» ]
3L3F X-ray 1.90 X 354-715 [» ]
3ODT X-ray 1.35 A/B 2-300 [» ]
3PSP X-ray 2.42 A 325-715 [» ]
3PST X-ray 2.00 A 325-715 [» ]
ProteinModelPortali P36037.
SMRi P36037. Positions 2-295, 376-715.
ModBasei Search...

Protein-protein interaction databases

BioGridi 33952. 437 interactions.
DIPi DIP-6274N.
IntActi P36037. 9 interactions.
MINTi MINT-606421.
STRINGi 4932.YKL213C.

Proteomic databases

MaxQBi P36037.
PaxDbi P36037.
PeptideAtlasi P36037.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YKL213C ; YKL213C ; YKL213C .
GeneIDi 853667.
KEGGi sce:YKL213C.

Organism-specific databases

CYGDi YKL213c.
SGDi S000001696. DOA1.

Phylogenomic databases

eggNOGi COG2319.
GeneTreei ENSGT00550000074944.
HOGENOMi HOG000174247.
KOi K14018.
OMAi PAYDIVR.
OrthoDBi EOG7FR7QW.

Enzyme and pathway databases

BioCyci YEAST:G3O-31971-MONOMER.

Miscellaneous databases

EvolutionaryTracei P36037.
NextBioi 974605.
PROi P36037.

Gene expression databases

Genevestigatori P36037.

Family and domain databases

Gene3Di 2.130.10.10. 2 hits.
InterProi IPR016024. ARM-type_fold.
IPR020472. G-protein_beta_WD-40_rep.
IPR015155. PLAA_fam_Ub-bd_PFU.
IPR013535. PUL.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view ]
Pfami PF09070. PFU. 1 hit.
PF08324. PUL. 1 hit.
PF00400. WD40. 5 hits.
[Graphical view ]
PRINTSi PR00320. GPROTEINBRPT.
SMARTi SM00320. WD40. 6 hits.
[Graphical view ]
SUPFAMi SSF48371. SSF48371. 1 hit.
SSF50978. SSF50978. 1 hit.
PROSITEi PS51394. PFU. 1 hit.
PS51396. PUL. 1 hit.
PS50082. WD_REPEATS_2. 4 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Hochstrasser M., Gang G.
    Submitted (NOV-1995) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "The complete sequencing of a 24.6 kb segment of yeast chromosome XI identified the known loci URA1, SAC1 and TRP3, and revealed 6 new open reading frames including homologues to the threonine dehydratases, membrane transporters, hydantoinases and the phospholipase A2-activating protein."
    Tzermia M., Horaitis O., Alexandraki D.
    Yeast 10:663-679(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. "Complete DNA sequence of yeast chromosome XI."
    Dujon B., Alexandraki D., Andre B., Ansorge W., Baladron V., Ballesta J.P.G., Banrevi A., Bolle P.-A., Bolotin-Fukuhara M., Bossier P., Bou G., Boyer J., Buitrago M.J., Cheret G., Colleaux L., Daignan-Fornier B., del Rey F., Dion C.
    , Domdey H., Duesterhoeft A., Duesterhus S., Entian K.-D., Erfle H., Esteban P.F., Feldmann H., Fernandes L., Fobo G.M., Fritz C., Fukuhara H., Gabel C., Gaillon L., Garcia-Cantalejo J.M., Garcia-Ramirez J.J., Gent M.E., Ghazvini M., Goffeau A., Gonzalez A., Grothues D., Guerreiro P., Hegemann J.H., Hewitt N., Hilger F., Hollenberg C.P., Horaitis O., Indge K.J., Jacquier A., James C.M., Jauniaux J.-C., Jimenez A., Keuchel H., Kirchrath L., Kleine K., Koetter P., Legrain P., Liebl S., Louis E.J., Maia e Silva A., Marck C., Monnier A.-L., Moestl D., Mueller S., Obermaier B., Oliver S.G., Pallier C., Pascolo S., Pfeiffer F., Philippsen P., Planta R.J., Pohl F.M., Pohl T.M., Poehlmann R., Portetelle D., Purnelle B., Puzos V., Ramezani Rad M., Rasmussen S.W., Remacha M.A., Revuelta J.L., Richard G.-F., Rieger M., Rodrigues-Pousada C., Rose M., Rupp T., Santos M.A., Schwager C., Sensen C., Skala J., Soares H., Sor F., Stegemann J., Tettelin H., Thierry A., Tzermia M., Urrestarazu L.A., van Dyck L., van Vliet-Reedijk J.C., Valens M., Vandenbol M., Vilela C., Vissers S., von Wettstein D., Voss H., Wiemann S., Xu G., Zimmermann J., Haasemann M., Becker I., Mewes H.-W.
    Nature 369:371-378(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  5. "Identification of a novel 29-linked polyubiquitin binding protein, Ufd3, using polyubiquitin chain analogues."
    Russell N.S., Wilkinson K.D.
    Biochemistry 43:4844-4854(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 126-144; 173-183; 215-227; 316-335; 345-361; 384-420; 534-541; 598-613; 654-685 AND 700-706, FUNCTION.
  6. "Cdc48p interacts with Ufd3p, a WD repeat protein required for ubiquitin-mediated proteolysis in Saccharomyces cerevisiae."
    Ghislain M., Dohmen R.J., Levy F., Varshavsky A.
    EMBO J. 15:4884-4899(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  7. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  8. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  9. "Functional division of substrate processing cofactors of the ubiquitin-selective Cdc48 chaperone."
    Rumpf S., Jentsch S.
    Mol. Cell 21:261-269(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH OTU1 AND CDC48.
  10. "Doa1 is a Cdc48 adapter that possesses a novel ubiquitin binding domain."
    Mullally J.E., Chernova T., Wilkinson K.D.
    Mol. Cell. Biol. 26:822-830(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH UBIQUITIN AND CDC48.
  11. "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-332, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  12. "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: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-332, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  13. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  14. "An Armadillo motif in Ufd3 interacts with Cdc48 and is involved in ubiquitin homeostasis and protein degradation."
    Zhao G., Li G., Schindelin H., Lennarz W.J.
    Proc. Natl. Acad. Sci. U.S.A. 106:16197-16202(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS) OF 464-715, INTERACTION WITH CDC48, ARM REPEATS, MUTAGENESIS OF ARG-541 AND ARG-669.
  15. "Crystal structure of a PFU-PUL domain pair of Saccharomyces cerevisiae Doa1/Ufd3."
    Nishimasu R., Komori H., Higuchi Y., Nishimasu H., Hiroaki H.
    Kobe J. Med. Sci. 56:E125-E139(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) OF 354-715, ARM REPEATS.

Entry informationi

Entry nameiDOA1_YEAST
AccessioniPrimary (citable) accession number: P36037
Secondary accession number(s): D6VWZ0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 1, 1994
Last modified: June 11, 2014
This is version 133 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 6800 molecules/cell in log phase SD medium.

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XI
    Yeast (Saccharomyces cerevisiae) chromosome XI: entries and gene names

External Data

Dasty 3

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