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P32340

- NDI1_YEAST

UniProt

P32340 - NDI1_YEAST

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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

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
Complete GO annotation...

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-KW
  2. mitochondrial matrix Source: SGD
  3. mitochondrion Source: SGD
Complete GO annotation...

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.
InParanoidiP32340.
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 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLSKNLYSNK RLLTSTNTLV RFASTRSTGV ENSGAGPTSF KTMKVIDPQH
60 70 80 90 100
SDKPNVLILG SGWGAISFLK HIDTKKYNVS IISPRSYFLF TPLLPSAPVG
110 120 130 140 150
TVDEKSIIEP IVNFALKKKG NVTYYEAEAT SINPDRNTVT IKSLSAVSQL
160 170 180 190 200
YQPENHLGLH QAEPAEIKYD YLISAVGAEP NTFGIPGVTD YGHFLKEIPN
210 220 230 240 250
SLEIRRTFAA NLEKANLLPK GDPERRRLLS IVVVGGGPTG VEAAGELQDY
260 270 280 290 300
VHQDLRKFLP ALAEEVQIHL VEALPIVLNM FEKKLSSYAQ SHLENTSIKV
310 320 330 340 350
HLRTAVAKVE EKQLLAKTKH EDGKITEETI PYGTLIWATG NKARPVITDL
360 370 380 390 400
FKKIPEQNSS KRGLAVNDFL QVKGSNNIFA IGDNAFAGLP PTAQVAHQEA
410 420 430 440 450
EYLAKNFDKM AQIPNFQKNL SSRKDKIDLL FEENNFKPFK YNDLGALAYL
460 470 480 490 500
GSERAIATIR SGKRTFYTGG GLMTFYLWRI LYLSMILSAR SRLKVFFDWI
510
KLAFFKRDFF KGL
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.
InParanoidi P32340.
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

« Hide 'large scale' publications
  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 29, 2014
This is version 146 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