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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: 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

FADBy similarityNote: Binds 1 FAD per subunit.By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi55 – 85FADBy similarityAdd BLAST31
Nucleotide bindingi229 – 265NADBy similarityAdd BLAST37

GO - Molecular functioni

  • NADH dehydrogenase (ubiquinone) activity Source: SGD

GO - Biological processi

  • chronological cell aging Source: SGD
  • mitochondrial electron transport, NADH to ubiquinone Source: SGD
  • NADH oxidation Source: SGD
  • 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.
BRENDAi1.6.5.9. 984.

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
Proteomesi
  • UP000002311 Componenti: Chromosome XIII

Organism-specific databases

EuPathDBiFungiDB:YML120C.
SGDiS000004589. NDI1.

Subcellular locationi

GO - Cellular componenti

  • mitochondrial inner membrane Source: UniProtKB-SubCell
  • mitochondrial matrix Source: SGD
  • mitochondrion Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Mitochondrion, Mitochondrion inner membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 26Mitochondrion1 PublicationAdd BLAST26
ChainiPRO_000002179327 – 513Rotenone-insensitive NADH-ubiquinone oxidoreductase, mitochondrialAdd BLAST487

Proteomic databases

MaxQBiP32340.
PRIDEiP32340.

2D gel databases

UCD-2DPAGEP32340.

PTM databases

iPTMnetiP32340.

Interactioni

Protein-protein interaction databases

BioGridi35084. 34 interactors.
DIPiDIP-5554N.
IntActiP32340. 15 interactors.
MINTiMINT-556740.

Structurei

Secondary structure

1513
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi44 – 46Combined sources3
Beta strandi50 – 53Combined sources4
Beta strandi55 – 59Combined sources5
Helixi63 – 71Combined sources9
Turni74 – 76Combined sources3
Beta strandi78 – 89Combined sources12
Helixi91 – 96Combined sources6
Turni97 – 100Combined sources4
Helixi104 – 107Combined sources4
Beta strandi108 – 110Combined sources3
Helixi111 – 115Combined sources5
Beta strandi122 – 133Combined sources12
Helixi134 – 136Combined sources3
Beta strandi138 – 149Combined sources12
Beta strandi151 – 153Combined sources3
Beta strandi165 – 168Combined sources4
Beta strandi170 – 174Combined sources5
Beta strandi178 – 180Combined sources3
Helixi188 – 191Combined sources4
Beta strandi193 – 197Combined sources5
Helixi198 – 217Combined sources20
Helixi223 – 228Combined sources6
Beta strandi230 – 234Combined sources5
Helixi238 – 253Combined sources16
Helixi255 – 258Combined sources4
Helixi260 – 265Combined sources6
Beta strandi267 – 271Combined sources5
Beta strandi273 – 278Combined sources6
Helixi283 – 295Combined sources13
Beta strandi299 – 301Combined sources3
Beta strandi304 – 309Combined sources6
Beta strandi311 – 319Combined sources9
Beta strandi321 – 323Combined sources3
Beta strandi325 – 331Combined sources7
Beta strandi333 – 337Combined sources5
Beta strandi341 – 343Combined sources3
Helixi345 – 353Combined sources9
Helixi355 – 357Combined sources3
Beta strandi362 – 366Combined sources5
Beta strandi370 – 372Combined sources3
Beta strandi376 – 380Combined sources5
Helixi382 – 384Combined sources3
Beta strandi385 – 389Combined sources5
Helixi393 – 410Combined sources18
Helixi414 – 419Combined sources6
Beta strandi422 – 424Combined sources3
Helixi427 – 433Combined sources7
Beta strandi445 – 449Combined sources5
Beta strandi455 – 461Combined sources7
Beta strandi464 – 471Combined sources8
Helixi472 – 485Combined sources14
Helixi489 – 504Combined sources16

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the NADH dehydrogenase family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

GeneTreeiENSGT00530000065152.
HOGENOMiHOG000182501.
InParanoidiP32340.
KOiK17871.
OMAiWIKLAFF.
OrthoDBiEOG092C2KAE.

Family and domain databases

Gene3Di3.50.50.60. 2 hits.
InterProiIPR023753. FAD/NAD-binding_dom.
[Graphical view]
PfamiPF07992. Pyr_redox_2. 1 hit.
[Graphical view]
SUPFAMiSSF51905. SSF51905. 2 hits.

Sequencei

Sequence statusi: Complete.

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

P32340-1 [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)DescriptionActionsGraphical viewLength
Natural varianti10K → R.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35084. 34 interactors.
DIPiDIP-5554N.
IntActiP32340. 15 interactors.
MINTiMINT-556740.

PTM databases

iPTMnetiP32340.

2D gel databases

UCD-2DPAGEP32340.

Proteomic databases

MaxQBiP32340.
PRIDEiP32340.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

EuPathDBiFungiDB:YML120C.
SGDiS000004589. NDI1.

Phylogenomic databases

GeneTreeiENSGT00530000065152.
HOGENOMiHOG000182501.
InParanoidiP32340.
KOiK17871.
OMAiWIKLAFF.
OrthoDBiEOG092C2KAE.

Enzyme and pathway databases

BioCyciMetaCyc:YML120C-MONOMER.
YEAST:YML120C-MONOMER.
BRENDAi1.6.5.9. 984.

Miscellaneous databases

PROiP32340.

Family and domain databases

Gene3Di3.50.50.60. 2 hits.
InterProiIPR023753. FAD/NAD-binding_dom.
[Graphical view]
PfamiPF07992. Pyr_redox_2. 1 hit.
[Graphical view]
SUPFAMiSSF51905. SSF51905. 2 hits.
ProtoNetiSearch...

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: November 2, 2016
This is version 165 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.