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P38830

- NDT80_YEAST

UniProt

P38830 - NDT80_YEAST

Protein

Meiosis-specific transcription factor NDT80

Gene

NDT80

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 117 (01 Oct 2014)
      Sequence version 4 (15 Jun 2010)
      Previous versions | rss
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    Functioni

    Transcription factor required for successful completion of meiosis and spore formation. Gets activated after completion of meiotic recombination at the end of prophase I. Recognizes and binds to the middle sporulation element (MSE) 5'-C[AG]CAAA[AT]-3' in the promoter region of stage-specific genes that are required for progression through meiosis and sporulation. Competes for binding to MSE with the transcriptional repressor SUM1, which represses middle sporulation-specific genes during mitosis and early sporulation.4 Publications

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei58 – 581Interaction with DNA
    Sitei111 – 1111Interaction with DNA
    Sitei177 – 1771Interaction with DNA
    Sitei208 – 2081Interaction with DNA
    Sitei254 – 2541Interaction with DNA
    Sitei326 – 3261Interaction with DNA

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi28 – 335308NDT80PROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. sequence-specific DNA binding transcription factor activity Source: SGD

    GO - Biological processi

    1. meiotic nuclear division Source: SGD
    2. transcription, DNA-templated Source: SGD

    Keywords - Biological processi

    Cell cycle, Cell division, Meiosis, Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-31165-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Meiosis-specific transcription factor NDT80
    Gene namesi
    Name:NDT80
    Synonyms:DAS1
    Ordered Locus Names:YHR124W
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome VIII

    Organism-specific databases

    SGDiS000001166. NDT80.

    Subcellular locationi

    Nucleus 1 Publication

    GO - Cellular componenti

    1. nuclear chromosome Source: SGD

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi50 – 501K → A: Reduces DNA-binding by 70%. 1 Publication
    Mutagenesisi54 – 541K → A: Reduces DNA-binding by 50%. 1 Publication
    Mutagenesisi57 – 571P → A: Reduces DNA-binding by 65%.
    Mutagenesisi58 – 581R → A: Reduces DNA-binding by 65%.
    Mutagenesisi59 – 591S → A: Reduces DNA-binding by 86%.
    Mutagenesisi97 – 971R → A: Reduces DNA-binding by 67%. 1 Publication
    Mutagenesisi110 – 1101K → A: No effect on DNA-binding but strongly reduces progress through meiosis and sporulation. 1 Publication
    Mutagenesisi111 – 1111R → A: Reduces DNA-binding by 95% and abolishes sporulation. 2 Publications
    Mutagenesisi113 – 1131Y → A: Reduces DNA-binding by 80% and abolishes sporulation. 2 Publications
    Mutagenesisi173 – 1731H → A: Reduces DNA-binding by 80% and strongly reduces progress through meiosis and sporulation. 1 Publication
    Mutagenesisi176 – 1761K → A: Reduces DNA-binding by 50% but does not abolish sporulation. 1 Publication
    Mutagenesisi177 – 1771R → A: Reduces DNA-binding by 96% and abolishes sporulation. 1 Publication
    Mutagenesisi202 – 2021R → A: No effect on DNA-binding but strongly reduces progress through meiosis and sporulation. 1 Publication
    Mutagenesisi208 – 2081R → A: Reduces DNA-binding by 50% and abolishes sporulation. 2 Publications
    Mutagenesisi254 – 2541R → A: Reduces DNA-binding by 93% and abolishes sporulation. 2 Publications
    Mutagenesisi326 – 3261R → A: Reduces DNA-binding by 50% and abolishes sporulation. 2 Publications

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 627627Meiosis-specific transcription factor NDT80PRO_0000096772Add
    BLAST

    Post-translational modificationi

    Phosphorylated by pachytene checkpoint kinase IME2, but also phosphorylated in an IME2-independent manner. Phosphorylation probably eliminates SUM1-mediated repression and is also required for full transcriptional activation activity. Phosphorylation of the DNA-binding domain by IME2 does not alter DNA binding affinity.5 Publications

    Keywords - PTMi

    Phosphoprotein

    Expressioni

    Inductioni

    Induced during prophase I of meiosis. Requires protein kinase IME2 for initial expression and continued transcription during meiotic divisions. Can autoactivate its own synthesis.4 Publications

    Gene expression databases

    GenevestigatoriP38830.

    Interactioni

    Subunit structurei

    Binds to DNA as a monomer.2 Publications

    Protein-protein interaction databases

    BioGridi36557. 50 interactions.
    IntActiP38830. 3 interactions.
    MINTiMINT-2780712.
    STRINGi4932.YHR124W.

    Structurei

    Secondary structure

    1
    627
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi35 – 384
    Beta strandi44 – 474
    Turni50 – 523
    Helixi60 – 623
    Beta strandi70 – 745
    Beta strandi78 – 803
    Turni81 – 833
    Beta strandi90 – 989
    Beta strandi100 – 1023
    Beta strandi105 – 1095
    Beta strandi114 – 1218
    Helixi127 – 1326
    Beta strandi135 – 1373
    Turni141 – 1433
    Beta strandi147 – 1493
    Beta strandi152 – 16110
    Turni162 – 1643
    Beta strandi166 – 1683
    Beta strandi170 – 1734
    Helixi177 – 1793
    Beta strandi188 – 1903
    Helixi198 – 2036
    Turni204 – 2063
    Helixi210 – 22011
    Beta strandi221 – 2233
    Helixi224 – 2263
    Helixi229 – 2313
    Helixi237 – 2404
    Beta strandi241 – 25717
    Beta strandi273 – 28311
    Helixi285 – 2873
    Beta strandi288 – 2914
    Beta strandi297 – 3015
    Beta strandi303 – 31715
    Beta strandi321 – 3244
    Helixi328 – 3303
    Helixi332 – 3343

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1M6UX-ray2.30A/B59-330[»]
    1M7UX-ray2.80A/B59-330[»]
    1MN4X-ray2.20A59-340[»]
    1MNNX-ray1.40A1-340[»]
    2ETWX-ray1.67A1-340[»]
    2EUVX-ray1.94A1-340[»]
    2EUWX-ray1.68A1-340[»]
    2EUXX-ray1.57A1-340[»]
    2EUZX-ray1.56A1-340[»]
    2EVFX-ray1.56A1-340[»]
    2EVGX-ray1.55A1-340[»]
    2EVHX-ray1.99A1-340[»]
    2EVIX-ray1.80A1-340[»]
    2EVJX-ray1.89A1-340[»]
    ProteinModelPortaliP38830.
    SMRiP38830. Positions 33-335.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP38830.

    Family & Domainsi

    Sequence similaritiesi

    Contains 1 NDT80 DNA-binding domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiNOG43588.
    HOGENOMiHOG000066112.
    KOiK12769.
    OrthoDBiEOG7CCC1W.

    Family and domain databases

    Gene3Di2.60.40.1390. 1 hit.
    InterProiIPR024061. NDT80_DNA-bd_dom.
    IPR008967. p53-like_TF_DNA-bd.
    [Graphical view]
    PfamiPF05224. NDT80_PhoG. 1 hit.
    [Graphical view]
    SUPFAMiSSF49417. SSF49417. 1 hit.
    PROSITEiPS51517. NDT80. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P38830-1 [UniParc]FASTAAdd to Basket

    « Hide

    MNEMENTDPV LQDDLVSKYE RELSTEQEED TPVILTQLNE DGTTSNYFDK    50
    RKLKIAPRST LQFKVGPPFE LVRDYCPVVE SHTGRTLDLR IIPRIDRGFD 100
    HIDEEWVGYK RNYFTLVSTF ETANCDLDTF LKSSFDLLVE DSSVESRLRV 150
    QYFAIKIKAK NDDDDTEINL VQHTAKRDKG PQFCPSVCPL VPSPLPKHQI 200
    IREASNVRNI TKMKKYDSTF YLHRDHVNYE EYGVDSLLFS YPEDSIQKVA 250
    RYERVQFASS ISVKKPSQQN KHFSLHVILG AVVDPDTFHG ENPGIPYDEL 300
    ALKNGSKGMF VYLQEMKTPP LIIRGRSPSN YASSQRITVR TPSSVNSSQN 350
    STKRKMPSMA QPLNESCLNA RPSKRRSKVA LGAPNSGASI SPIKSRQSTP 400
    MEASKENEDP FFRPNKRVET LEHIQNKLGA LKNQCPDSSL KYPSSSSRGM 450
    EGCLEKEDLV YSSSFSVNMK QIELKPARSF EHENIFKVGS LAFKKINELP 500
    HENYDITIEK KSMEQNYLRP EIGSRSECKT SYGNELSLSN ISFSILPNSA 550
    ENFHLETALF PATEEDVPRT FSRILETGSF QNYYQKMDAE NADRVYSKGV 600
    KLIASGTLPS GIFNREELFE EDSFYKY 627
    Length:627
    Mass (Da):71,479
    Last modified:June 15, 2010 - v4
    Checksum:i947DA0BA08065595
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti200 – 2001I → T(PubMed:12411490)Curated
    Sequence conflicti213 – 2131M → T(PubMed:12384578)Curated
    Sequence conflicti225 – 2251D → N(PubMed:12384578)Curated
    Sequence conflicti267 – 2671S → F(PubMed:12384578)Curated
    Sequence conflicti363 – 3631L → S in AAU09742. (PubMed:17322287)Curated
    Sequence conflicti493 – 4931F → L in AAA92299. (PubMed:8524222)Curated
    Sequence conflicti568 – 5681P → N in AAA92299. (PubMed:8524222)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U35122 Genomic DNA. Translation: AAA92299.1.
    U10398 Genomic DNA. Translation: AAB68408.1.
    AY723825 Genomic DNA. Translation: AAU09742.1.
    BK006934 Genomic DNA. Translation: DAA06818.1.
    PIRiS48968.
    RefSeqiNP_011992.1. NM_001179254.1.

    Genome annotation databases

    EnsemblFungiiYHR124W; YHR124W; YHR124W.
    GeneIDi856524.
    KEGGisce:YHR124W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U35122 Genomic DNA. Translation: AAA92299.1 .
    U10398 Genomic DNA. Translation: AAB68408.1 .
    AY723825 Genomic DNA. Translation: AAU09742.1 .
    BK006934 Genomic DNA. Translation: DAA06818.1 .
    PIRi S48968.
    RefSeqi NP_011992.1. NM_001179254.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1M6U X-ray 2.30 A/B 59-330 [» ]
    1M7U X-ray 2.80 A/B 59-330 [» ]
    1MN4 X-ray 2.20 A 59-340 [» ]
    1MNN X-ray 1.40 A 1-340 [» ]
    2ETW X-ray 1.67 A 1-340 [» ]
    2EUV X-ray 1.94 A 1-340 [» ]
    2EUW X-ray 1.68 A 1-340 [» ]
    2EUX X-ray 1.57 A 1-340 [» ]
    2EUZ X-ray 1.56 A 1-340 [» ]
    2EVF X-ray 1.56 A 1-340 [» ]
    2EVG X-ray 1.55 A 1-340 [» ]
    2EVH X-ray 1.99 A 1-340 [» ]
    2EVI X-ray 1.80 A 1-340 [» ]
    2EVJ X-ray 1.89 A 1-340 [» ]
    ProteinModelPortali P38830.
    SMRi P38830. Positions 33-335.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 36557. 50 interactions.
    IntActi P38830. 3 interactions.
    MINTi MINT-2780712.
    STRINGi 4932.YHR124W.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YHR124W ; YHR124W ; YHR124W .
    GeneIDi 856524.
    KEGGi sce:YHR124W.

    Organism-specific databases

    SGDi S000001166. NDT80.

    Phylogenomic databases

    eggNOGi NOG43588.
    HOGENOMi HOG000066112.
    KOi K12769.
    OrthoDBi EOG7CCC1W.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-31165-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P38830.
    NextBioi 982290.

    Gene expression databases

    Genevestigatori P38830.

    Family and domain databases

    Gene3Di 2.60.40.1390. 1 hit.
    InterProi IPR024061. NDT80_DNA-bd_dom.
    IPR008967. p53-like_TF_DNA-bd.
    [Graphical view ]
    Pfami PF05224. NDT80_PhoG. 1 hit.
    [Graphical view ]
    SUPFAMi SSF49417. SSF49417. 1 hit.
    PROSITEi PS51517. NDT80. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "NDT80, a meiosis-specific gene required for exit from pachytene in Saccharomyces cerevisiae."
      Xu L., Ajimura M., Padmore R., Klein C., Kleckner N.
      Mol. Cell. Biol. 15:6572-6581(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
      Strain: S288c / GRF88.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    5. "Gametogenesis in yeast is regulated by a transcriptional cascade dependent on Ndt80."
      Chu S., Herskowitz I.
      Mol. Cell 1:685-696(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DNA-BINDING.
    6. "NDT80 and the meiotic recombination checkpoint regulate expression of middle sporulation-specific genes in Saccharomyces cerevisiae."
      Hepworth S.R., Friesen H., Segall J.
      Mol. Cell. Biol. 18:5750-5761(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INDUCTION.
    7. "The pachytene checkpoint prevents accumulation and phosphorylation of the meiosis-specific transcription factor Ndt80."
      Tung K.-S., Hong E.-J.E., Roeder G.S.
      Proc. Natl. Acad. Sci. U.S.A. 97:12187-12192(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION, SUBCELLULAR LOCATION.
    8. "Regulation of the premiddle and middle phases of expression of the NDT80 gene during sporulation of Saccharomyces cerevisiae."
      Pak J., Segall J.
      Mol. Cell. Biol. 22:6417-6429(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: INDUCTION.
    9. "Phosphorylation and maximal activity of Saccharomyces cerevisiae meiosis-specific transcription factor Ndt80 is dependent on Ime2."
      Sopko R., Raithatha S., Stuart D.T.
      Mol. Cell. Biol. 22:7024-7040(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION BY IME2.
    10. "Control of landmark events in meiosis by the CDK Cdc28 and the meiosis-specific kinase Ime2."
      Benjamin K.R., Zhang C., Shokat K.M., Herskowitz I.
      Genes Dev. 17:1524-1539(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION BY IME2, INDUCTION.
    11. "Sum1 and Ndt80 proteins compete for binding to middle sporulation element sequences that control meiotic gene expression."
      Pierce M., Benjamin K.R., Montano S.P., Georgiadis M.M., Winter E., Vershon A.K.
      Mol. Cell. Biol. 23:4814-4825(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    12. "Activity of phosphoforms and truncated versions of Ndt80, a checkpoint-regulated sporulation-specific transcription factor of Saccharomyces cerevisiae."
      Shubassi G., Luca N., Pak J., Segall J.
      Mol. Genet. Genomics 270:324-336(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION, INDUCTION.
    13. "Characterization of critical interactions between Ndt80 and MSE DNA defining a novel family of Ig-fold transcription factors."
      Fingerman I.M., Sutphen K., Montano S.P., Georgiadis M.M., Vershon A.K.
      Nucleic Acids Res. 32:2947-2956(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: DNA-BINDING, MUTAGENESIS OF LYS-50; LYS-54; 57-PRO--SER-59; ARG-97; ARG-111; TYR-113; 176-LYS-ARG-177; ARG-208; ARG-254 AND ARG-326.
    14. "Purification and characterization of the DNA binding domain of Saccharomyces cerevisiae meiosis-specific transcription factor Ndt80."
      Sopko R., Stuart D.T.
      Protein Expr. Purif. 33:134-144(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION BY IME2, DNA-BINDING.
    15. "Structure of the sporulation-specific transcription factor Ndt80 bound to DNA."
      Lamoureux J.S., Stuart D.T., Tsang R., Wu C., Glover J.N.M.
      EMBO J. 21:5721-5732(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.4 ANGSTROMS) OF 1-340 IN COMPLEX WITH DNA.
    16. "Crystal structure of the DNA-binding domain from Ndt80, a transcriptional activator required for meiosis in yeast."
      Montano S.P., Cote M.L., Fingerman I.M., Pierce M., Vershon A.K., Georgiadis M.M.
      Proc. Natl. Acad. Sci. U.S.A. 99:14041-14046(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 59-330, MUTAGENESIS OF LYS-110; ARG-111; TYR-113; HIS-173; LYS-176; ARG-177; ARG-202; ARG-208; ARG-254 AND ARG-326, SUBUNIT.
    17. "Principles of protein-DNA recognition revealed in the structural analysis of Ndt80-MSE DNA complexes."
      Lamoureux J.S., Glover J.N.M.
      Structure 14:555-565(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.55 ANGSTROMS) OF 1-340 IN COMPLEXES WITH TARGET DNA.

    Entry informationi

    Entry nameiNDT80_YEAST
    AccessioniPrimary (citable) accession number: P38830
    Secondary accession number(s): D3DL74, Q66R83
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1995
    Last sequence update: June 15, 2010
    Last modified: October 1, 2014
    This is version 117 of the entry and version 4 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, 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 VIII
      Yeast (Saccharomyces cerevisiae) chromosome VIII: entries and gene names

    External Data

    Dasty 3