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P32340

- NDI1_YEAST

UniProt

P32340 - NDI1_YEAST

Protein

Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial

Gene

NDI1

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 145 (01 Oct 2014)
      Sequence version 1 (01 Oct 1993)
      Previous versions | rss
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    Functioni

    Catalyzes the oxidation of NADH generated inside the Mitochondrion.

    Catalytic activityi

    NADH + ubiquinone = NAD+ + ubiquinol.

    Cofactori

    Binds 1 FAD per subunit.By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi55 – 8531FADBy similarityAdd
    BLAST
    Nucleotide bindingi229 – 26537NADBy similarityAdd
    BLAST

    GO - Molecular functioni

    1. flavin adenine dinucleotide binding Source: InterPro
    2. NADH dehydrogenase (ubiquinone) activity Source: SGD

    GO - Biological processi

    1. chronological cell aging Source: SGD
    2. mitochondrial electron transport, NADH to ubiquinone Source: SGD
    3. NADH oxidation Source: SGD
    4. positive regulation of apoptotic process Source: SGD

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Ligandi

    FAD, Flavoprotein, NAD, Ubiquinone

    Enzyme and pathway databases

    BioCyciMetaCyc:YML120C-MONOMER.
    YEAST:YML120C-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrial (EC:1.6.5.9)
    Alternative name(s):
    Internal NADH dehydrogenase
    NADH:ubiquinone reductase (non-electrogenic)
    Gene namesi
    Name:NDI1
    Ordered Locus Names:YML120C
    ORF Names:YM7056.06C
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XIII

    Organism-specific databases

    CYGDiYML120c.
    SGDiS000004589. NDI1.

    Subcellular locationi

    Mitochondrion inner membrane 1 Publication; Peripheral membrane protein 1 Publication; Matrix side 1 Publication
    Note: Bound to the mitochondrial inner membrane facing the matrix site.

    GO - Cellular componenti

    1. mitochondrial inner membrane Source: UniProtKB-SubCell
    2. mitochondrial matrix Source: SGD
    3. mitochondrion Source: SGD

    Keywords - Cellular componenti

    Membrane, Mitochondrion, Mitochondrion inner membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 2626Mitochondrion1 PublicationAdd
    BLAST
    Chaini27 – 513487Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrialPRO_0000021793Add
    BLAST

    Proteomic databases

    MaxQBiP32340.
    PaxDbiP32340.
    PeptideAtlasiP32340.

    2D gel databases

    UCD-2DPAGEP32340.

    Expressioni

    Gene expression databases

    GenevestigatoriP32340.

    Interactioni

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    ERG11P106141EBI-11961,EBI-5127

    Protein-protein interaction databases

    BioGridi35084. 34 interactions.
    DIPiDIP-5554N.
    IntActiP32340. 15 interactions.
    MINTiMINT-556740.
    STRINGi4932.YML120C.

    Structurei

    Secondary structure

    1
    513
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi44 – 463
    Beta strandi50 – 534
    Beta strandi55 – 595
    Helixi63 – 719
    Turni74 – 763
    Beta strandi78 – 8912
    Helixi91 – 966
    Turni97 – 1004
    Helixi104 – 1074
    Beta strandi108 – 1103
    Helixi111 – 1155
    Beta strandi122 – 13312
    Helixi134 – 1363
    Beta strandi138 – 14912
    Beta strandi151 – 1533
    Beta strandi165 – 1684
    Beta strandi170 – 1745
    Beta strandi178 – 1803
    Helixi188 – 1914
    Beta strandi193 – 1975
    Helixi198 – 21720
    Helixi223 – 2286
    Beta strandi230 – 2345
    Helixi238 – 25316
    Helixi255 – 2584
    Helixi260 – 2656
    Beta strandi267 – 2715
    Beta strandi273 – 2786
    Helixi283 – 29513
    Beta strandi299 – 3013
    Beta strandi304 – 3096
    Beta strandi311 – 3199
    Beta strandi321 – 3233
    Beta strandi325 – 3317
    Beta strandi333 – 3375
    Beta strandi341 – 3433
    Helixi345 – 3539
    Helixi355 – 3573
    Beta strandi362 – 3665
    Beta strandi370 – 3723
    Beta strandi376 – 3805
    Helixi382 – 3843
    Beta strandi385 – 3895
    Helixi393 – 41018
    Helixi414 – 4196
    Beta strandi422 – 4243
    Helixi427 – 4337
    Beta strandi445 – 4495
    Beta strandi455 – 4617
    Beta strandi464 – 4718
    Helixi472 – 48514
    Helixi489 – 50416

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4G6GX-ray2.39A/B24-513[»]
    4G6HX-ray2.26A/B24-513[»]
    4G73X-ray2.52A/B24-513[»]
    4G74X-ray2.48A/B24-513[»]
    4G9KX-ray2.70A/B43-513[»]
    4GAPX-ray2.90A/B43-513[»]
    4GAVX-ray3.00A/B43-513[»]
    ProteinModelPortaliP32340.
    SMRiP32340. Positions 42-513.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the NADH dehydrogenase family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG1252.
    GeneTreeiENSGT00530000065152.
    HOGENOMiHOG000182501.
    KOiK17871.
    OMAiPMLYQVA.
    OrthoDBiEOG7034S6.

    Family and domain databases

    InterProiIPR013027. FAD_pyr_nucl-diS_OxRdtase.
    IPR023753. Pyr_nucl-diS_OxRdtase_FAD/NAD.
    IPR001327. Pyr_OxRdtase_NAD-bd_dom.
    [Graphical view]
    PfamiPF00070. Pyr_redox. 1 hit.
    PF07992. Pyr_redox_2. 2 hits.
    [Graphical view]
    PRINTSiPR00368. FADPNR.

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P32340-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLSKNLYSNK RLLTSTNTLV RFASTRSTGV ENSGAGPTSF KTMKVIDPQH    50
    SDKPNVLILG SGWGAISFLK HIDTKKYNVS IISPRSYFLF TPLLPSAPVG 100
    TVDEKSIIEP IVNFALKKKG NVTYYEAEAT SINPDRNTVT IKSLSAVSQL 150
    YQPENHLGLH QAEPAEIKYD YLISAVGAEP NTFGIPGVTD YGHFLKEIPN 200
    SLEIRRTFAA NLEKANLLPK GDPERRRLLS IVVVGGGPTG VEAAGELQDY 250
    VHQDLRKFLP ALAEEVQIHL VEALPIVLNM FEKKLSSYAQ SHLENTSIKV 300
    HLRTAVAKVE EKQLLAKTKH EDGKITEETI PYGTLIWATG NKARPVITDL 350
    FKKIPEQNSS KRGLAVNDFL QVKGSNNIFA IGDNAFAGLP PTAQVAHQEA 400
    EYLAKNFDKM AQIPNFQKNL SSRKDKIDLL FEENNFKPFK YNDLGALAYL 450
    GSERAIATIR SGKRTFYTGG GLMTFYLWRI LYLSMILSAR SRLKVFFDWI 500
    KLAFFKRDFF KGL 513
    Length:513
    Mass (Da):57,250
    Last modified:October 1, 1993 - v1
    Checksum:iE3A43D75A1ADCF3B
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti10 – 101K → R.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X61590 Genomic DNA. Translation: CAA43787.1. Sequence problems.
    Z49218 Genomic DNA. Translation: CAA89160.1.
    AY723851 Genomic DNA. Translation: AAU09768.1.
    BK006946 Genomic DNA. Translation: DAA09778.1.
    PIRiS26704.
    RefSeqiNP_013586.1. NM_001182483.1.

    Genome annotation databases

    EnsemblFungiiYML120C; YML120C; YML120C.
    GeneIDi854919.
    KEGGisce:YML120C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X61590 Genomic DNA. Translation: CAA43787.1 . Sequence problems.
    Z49218 Genomic DNA. Translation: CAA89160.1 .
    AY723851 Genomic DNA. Translation: AAU09768.1 .
    BK006946 Genomic DNA. Translation: DAA09778.1 .
    PIRi S26704.
    RefSeqi NP_013586.1. NM_001182483.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4G6G X-ray 2.39 A/B 24-513 [» ]
    4G6H X-ray 2.26 A/B 24-513 [» ]
    4G73 X-ray 2.52 A/B 24-513 [» ]
    4G74 X-ray 2.48 A/B 24-513 [» ]
    4G9K X-ray 2.70 A/B 43-513 [» ]
    4GAP X-ray 2.90 A/B 43-513 [» ]
    4GAV X-ray 3.00 A/B 43-513 [» ]
    ProteinModelPortali P32340.
    SMRi P32340. Positions 42-513.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 35084. 34 interactions.
    DIPi DIP-5554N.
    IntActi P32340. 15 interactions.
    MINTi MINT-556740.
    STRINGi 4932.YML120C.

    2D gel databases

    UCD-2DPAGE P32340.

    Proteomic databases

    MaxQBi P32340.
    PaxDbi P32340.
    PeptideAtlasi P32340.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YML120C ; YML120C ; YML120C .
    GeneIDi 854919.
    KEGGi sce:YML120C.

    Organism-specific databases

    CYGDi YML120c.
    SGDi S000004589. NDI1.

    Phylogenomic databases

    eggNOGi COG1252.
    GeneTreei ENSGT00530000065152.
    HOGENOMi HOG000182501.
    KOi K17871.
    OMAi PMLYQVA.
    OrthoDBi EOG7034S6.

    Enzyme and pathway databases

    BioCyci MetaCyc:YML120C-MONOMER.
    YEAST:YML120C-MONOMER.

    Miscellaneous databases

    NextBioi 977929.
    PROi P32340.

    Gene expression databases

    Genevestigatori P32340.

    Family and domain databases

    InterProi IPR013027. FAD_pyr_nucl-diS_OxRdtase.
    IPR023753. Pyr_nucl-diS_OxRdtase_FAD/NAD.
    IPR001327. Pyr_OxRdtase_NAD-bd_dom.
    [Graphical view ]
    Pfami PF00070. Pyr_redox. 1 hit.
    PF07992. Pyr_redox_2. 2 hits.
    [Graphical view ]
    PRINTSi PR00368. FADPNR.
    ProtoNeti Search...

    Publicationsi

    1. "Primary structure and import pathway of the rotenone-insensitive NADH-ubiquinone oxidoreductase of mitochondria from Saccharomyces cerevisiae."
      de Vries S., van Witzenburg R., Grivell L.A., Marres C.A.M.
      Eur. J. Biochem. 203:587-592(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 27-36 AND 41-50.
      Strain: YP102.
    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. "Yeast mitochondrial dehydrogenases are associated in a supramolecular complex."
      Grandier-Vazeille X., Bathany K., Chaignepain S., Camougrand N., Manon S., Schmitter J.-M.
      Biochemistry 40:9758-9769(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION.
    6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    7. "Profiling phosphoproteins of yeast mitochondria reveals a role of phosphorylation in assembly of the ATP synthase."
      Reinders J., Wagner K., Zahedi R.P., Stojanovski D., Eyrich B., van der Laan M., Rehling P., Sickmann A., Pfanner N., Meisinger C.
      Mol. Cell. Proteomics 6:1896-1906(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Strain: ATCC 76625 / YPH499.

    Entry informationi

    Entry nameiNDI1_YEAST
    AccessioniPrimary (citable) accession number: P32340
    Secondary accession number(s): D6W0G4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1993
    Last sequence update: October 1, 1993
    Last modified: October 1, 2014
    This is version 145 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 5240 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 XIII
      Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

    External Data

    Dasty 3