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P36037

- DOA1_YEAST

UniProt

P36037 - DOA1_YEAST

Protein

Protein DOA1

Gene

DOA1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 134 (01 Oct 2014)
      Sequence version 1 (01 Jun 1994)
      Previous versions | rss
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    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

    GO - Biological processi

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

    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 1 Publication. Cytoplasm 1 Publication

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell
    2. nucleus Source: UniProtKB-SubCell

    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 DOA1PRO_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. 439 interactions.
    DIPiDIP-6274N.
    IntActiP36037. 9 interactions.
    MINTiMINT-606421.
    STRINGi4932.YKL213C.

    Structurei

    Secondary structure

    1
    715
    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.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP36037.

    Family & Domainsi

    Domains and Repeats

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

    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

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti180 – 1801D → DI AA sequence (PubMed:15096053)Curated

    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...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 33952. 439 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

    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: October 1, 2014
    This is version 134 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.1 Publication

    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