NDUFS1

gene
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Also known as CI-75k

Summary

NDUFS1 (NADH:ubiquinone oxidoreductase core subunit S1, HGNC:7707) is a protein-coding gene on chromosome 2q33.3, encoding NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial (P28331). Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) which catalyzes electron transfer from NADH through the respiratory chain, using ubiquinone as an electron acceptor. It is a selective cancer dependency (DepMap: 37.3% of cell lines).

The protein encoded by this gene belongs to the complex I 75 kDa subunit family. Mammalian complex I is composed of 45 different subunits. It locates at the mitochondrial inner membrane. This protein has NADH dehydrogenase activity and oxidoreductase activity. It transfers electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone. This protein is the largest subunit of complex I and it is a component of the iron-sulfur (IP) fragment of the enzyme. It may form part of the active site crevice where NADH is oxidized. Mutations in this gene are associated with complex I deficiency. Several transcript variants encoding different isoforms have been found for this gene.

Source: NCBI Gene 4719 — RefSeq curated summary.

At a glance

  • Gene–disease (curated): mitochondrial disease (Definitive, ClinGen) — +4 more curated relationships
  • GWAS associations: 5
  • Clinical variants (ClinVar): 505 total — 15 pathogenic, 30 likely-pathogenic
  • Phenotypes (HPO): 62
  • Druggable target: yes
  • Cancer dependency (DepMap): dependent in 37.3% of screened cell lines
  • MANE Select transcript: NM_005006

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:7707
Approved symbolNDUFS1
NameNADH:ubiquinone oxidoreductase core subunit S1
Location2q33.3
Locus typegene with protein product
StatusApproved
AliasesCI-75k
Ensembl geneENSG00000023228
Ensembl biotypeprotein_coding
OMIM157655
Entrez4719

Gene structure

Transcript identifiers

Ensembl transcripts: 33 — 31 protein_coding, 1 nonsense_mediated_decay, 1 retained_intron

ENST00000233190, ENST00000423725, ENST00000432169, ENST00000440274, ENST00000449699, ENST00000454195, ENST00000456284, ENST00000457011, ENST00000498520, ENST00000903700, ENST00000903701, ENST00000903702, ENST00000903703, ENST00000903704, ENST00000903705, ENST00000903706, ENST00000903707, ENST00000903708, ENST00000903709, ENST00000938122, ENST00000938123, ENST00000938124, ENST00000948898, ENST00000948899, ENST00000948900, ENST00000948901, ENST00000948902, ENST00000948903, ENST00000948904, ENST00000948905, ENST00000948906, ENST00000948907, ENST00000948908

RefSeq mRNA: 5 — MANE Select: NM_005006 NM_001199981, NM_001199982, NM_001199983, NM_001199984, NM_005006

CCDS: CCDS2366, CCDS56162, CCDS56163, CCDS56164

Canonical transcript exons

ENST00000233190 — 19 exons

ExonStartEnd
ENSE00000469822206142686206142831
ENSE00000469824206138485206138614
ENSE00000784947206126539206126611
ENSE00000784948206126710206126844
ENSE00000784949206127797206127972
ENSE00000784951206132945206133105
ENSE00000784953206141941206142069
ENSE00000784955206144018206144132
ENSE00000784956206144892206145026
ENSE00000784957206146903206147088
ENSE00000784958206147531206147661
ENSE00000796659206152419206152510
ENSE00001366685206159341206159444
ENSE00001840375206114817206124276
ENSE00003559678206149818206149925
ENSE00003598955206153618206153682
ENSE00003625672206130088206130242
ENSE00003657299206149020206149096
ENSE00003678234206147753206147834

Expression profiles

Bgee: expression breadth ubiquitous, 142 present calls, max score 98.69.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 49.3791 / max 664.7939, expressed in 1812 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter IDTPM avgSamples expressed
3335346.78441811
333541.2637869
333521.1954705
333510.135551

Top tissues by expression

142 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
corpus callosumUBERON:000233698.69gold quality
skeletal muscle tissueUBERON:000113498.35gold quality
adrenal tissueUBERON:001830398.31gold quality
skeletal muscle organUBERON:001489298.10gold quality
muscle of legUBERON:000138398.09gold quality
gastrocnemiusUBERON:000138898.05gold quality
hindlimb stylopod muscleUBERON:000425298.00gold quality
heart left ventricleUBERON:000208497.81gold quality
apex of heartUBERON:000209897.42gold quality
right atrium auricular regionUBERON:000663197.11gold quality
muscle tissueUBERON:000238596.83gold quality
islet of LangerhansUBERON:000000696.81gold quality
heartUBERON:000094896.79gold quality
rectumUBERON:000105296.66gold quality
right adrenal glandUBERON:000123396.33gold quality
adrenal glandUBERON:000236996.09gold quality
right adrenal gland cortexUBERON:003582795.97gold quality
duodenumUBERON:000211495.96gold quality
left adrenal glandUBERON:000123495.94gold quality
calcaneal tendonUBERON:000370195.29gold quality
left adrenal gland cortexUBERON:003582595.23gold quality
colonic epitheliumUBERON:000039794.93gold quality
tonsilUBERON:000237294.56gold quality
smooth muscle tissueUBERON:000113594.44gold quality
superior frontal gyrusUBERON:000266194.43gold quality
prefrontal cortexUBERON:000045194.30gold quality
liverUBERON:000210794.24gold quality
adult mammalian kidneyUBERON:000008294.14gold quality
kidneyUBERON:000211394.04gold quality
ventricular zoneUBERON:000305393.43gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-MTAB-6379no1375.62
E-MTAB-6386no160.13
E-ANND-3no0.00

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

46 targeting NDUFS1, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-4795-3P100.0074.624024
HSA-MIR-126-5P100.0072.713180
HSA-MIR-8485100.0077.574731
HSA-MIR-3924100.0072.092394
HSA-MIR-5692A100.0074.406850
HSA-MIR-4713-3P100.0065.92505
HSA-MIR-428299.9975.366408
HSA-MIR-520D-5P99.9873.344883
HSA-MIR-524-5P99.9873.434882
HSA-MIR-1213699.9872.815713
HSA-MIR-60799.9773.625593
HSA-MIR-302C-5P99.9772.563642
HSA-MIR-1250-3P99.9670.044038
HSA-MIR-3912-5P99.9566.11925
HSA-MIR-6508-5P99.9270.672465
HSA-MIR-367199.9073.043897
HSA-MIR-627-3P99.9071.423316
HSA-MIR-153-5P99.8973.866317
HSA-MIR-394199.8670.542735
HSA-MIR-806799.8669.592260
HSA-MIR-94499.8270.853042
HSA-MIR-3121-3P99.8271.963630
HSA-MIR-808499.7369.571760
HSA-MIR-545-5P99.6670.182308
HSA-MIR-570099.6469.882280
HSA-MIR-451B99.5568.281380
HSA-MIR-1252-3P99.5567.712862
HSA-MIR-4735-5P99.4368.491780
HSA-MIR-4666A-5P99.4169.721887
HSA-MIR-32-3P99.3668.202517

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 37.3% of screened cell lines.

Literature-anchored findings (GeneRIF, showing 21)

  • A patient with Leigh syndrome had a mutation in the NDUFS1 protein of Complex I of the Respiratory Chain. Identifying nuclear mutations will help us understand how molecular defects can lead to complex I deficiency. (PMID:15824269)
  • mutations in the NDUFS1 and NDUFS4 genes of complex I cause dysfunction in cellular oxidative metabolism (PMID:16478720)
  • This protein has been found differentially expressed in the Wernicke’s Area from patients with schizophrenia. (PMID:19405953)
  • Mutations in electron Transport Complex I is associated with Leber hereditary optic neuropathy failing to compensate for impaired oxidative phosphorylation. (PMID:19836344)
  • report 3 patients with low residual complex I activity who displayed novel mutations in the NDUFS1 gene. One mutation introduces a premature stop codon, 3 mutations cause a substitution of amino acids and another mutation a deletion of one amino acid. (PMID:20382551)
  • data suggest that gamma oscillations are especially energy demanding and require both high complex I expression and strong functional performance of mitochondria. (PMID:21183487)
  • homozygous c.1783A>G (p.Thr595Ala) mutation in NDUFS1 in two inbred siblings with isolated complex I deficiency associated to a progressive cavitating leukoencephalopathy (PMID:21203893)
  • The peripheral leukocyte oxidative phosphorylation enzyme activity assay was found to be a reliable method for the diagnosis of mitochondrial diseases. (PMID:21540367)
  • A protein encoded by this locus was found to be differentially expressed in postmortem brains from patients with atypical frontotemporal lobar degeneration. (PMID:22360420)
  • Some mutations in NDUFS1 cause a milder phenotype with a more benign course despite the initial decompensation phase. Homozygosity for the c.755A > G missense mutation may correlate with the milder clinical picture in the patient. (PMID:24952175)
  • NDUFS1 may confer susceptibility to schizophrenia in male subjects, acting as a causative factor for the severity of negative symptoms in schizophrenia. (PMID:25354934)
  • The presented clinical courses of NDUFV1 and NDUFS1 mutation-based complex I deficiencies are characterized by leukoencephalopathy or early death and expand the already heterogeneous phenotypic spectrum. (PMID:25615419)
  • Results found nominal significant associations of 2 SNPs in the NDUFS1 gene and 4 SNPs in the NDUFS2 gene with early onset schizophrenia (EOS), but none of these associations survived the Bonferroni correction. (PMID:26053550)
  • Loss of FOXRED1, coupled with protein, choline and/or folate-deficient diets results in the depletion of glutathione, the dysregulation of nitric oxide metabolism and the peroxynitrite-mediated inactivation of complex I. (PMID:26235939)
  • High NDUFS1 expression is associated with cognitive impairment in lung cancer. (PMID:26987334)
  • Results show that NDUFS1 protein and mRNA levels are down-regulated in lung neoplasm and correlate with poor overall survival. (PMID:27516145)
  • MDM2 directly binds and sequesters NDUFS1, preventing its mitochondrial localization and ultimately causing complex I and supercomplex destabilization and inefficiency of oxidative phosphorylation. (PMID:30879903)
  • The biallelic mutations in NDUFS1 led to a decreased stability of the entire N-module of electron transport complex I and disrupted the electron transfer between two iron-sulfur clusters. (PMID:31557978)
  • Down regulation of NDUFS1 is involved in the progression of parenteral-nutrition-associated liver disease by increasing Oxidative stress. (PMID:36402252)
  • PHB2 promotes colorectal cancer cell proliferation and tumorigenesis through NDUFS1-mediated oxidative phosphorylation. (PMID:36658121)
  • Association between NDUFS1 from urinary extracellular vesicles and decreased differential renal function in children with ureteropelvic junction obstruction. (PMID:38720274)

Cross-species orthologs

5 orthologs

OrganismSymbolGene ID
danio_reriondufs1ENSDARG00000028546
mus_musculusNdufs1ENSMUSG00000025968
rattus_norvegicusNdufs1ENSRNOG00000011849
drosophila_melanogasterND-75FBGN0017566
caenorhabditis_elegansWBGENE00021562

Paralogs (2): CIAO3 (ENSG00000103245), NARF (ENSG00000141562)

Protein

Protein identifiers

NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrialP28331 (reviewed: P28331)

Alternative names: Complex I-75kD

All UniProt accessions (5): B4DJ81, C9JPQ5, E5KRK5, P28331, F8WDL5

UniProt curated annotations — full annotation on UniProt →

Function. Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) which catalyzes electron transfer from NADH through the respiratory chain, using ubiquinone as an electron acceptor. Essential for catalysing the entry and efficient transfer of electrons within complex I. Plays a key role in the assembly and stability of complex I and participates in the association of complex I with ubiquinol-cytochrome reductase complex (Complex III) to form supercomplexes.

Subunit / interactions. Core subunit of respiratory chain NADH dehydrogenase (Complex I) which is composed of 45 different subunits. This is the largest subunit of complex I and it is a component of the iron-sulfur (IP) fragment of the enzyme. Complex I associates with ubiquinol-cytochrome reductase complex (Complex III) to form supercomplexes. Interacts with MDM2. Interacts with AKAP1.

Subcellular location. Mitochondrion inner membrane.

Disease relevance. Mitochondrial complex I deficiency, nuclear type 5 (MC1DN5) [MIM:618226] A form of mitochondrial complex I deficiency, the most common biochemical signature of mitochondrial disorders, a group of highly heterogeneous conditions characterized by defective oxidative phosphorylation, which collectively affects 1 in 5-10000 live births. Clinical disorders have variable severity, ranging from lethal neonatal disease to adult-onset neurodegenerative disorders. Phenotypes include macrocephaly with progressive leukodystrophy, non-specific encephalopathy, cardiomyopathy, myopathy, liver disease, Leigh syndrome, Leber hereditary optic neuropathy, and some forms of Parkinson disease. MC1DN5 transmission pattern is consistent with autosomal recessive inheritance. The disease is caused by variants affecting the gene represented in this entry.

Cofactor. Binds 1 [2Fe-2S] cluster per subunit. Binds 2 [4Fe-4S] clusters per subunit.

Similarity. Belongs to the complex I 75 kDa subunit family.

Isoforms (5)

UniProt IDNamesCanonical?
P28331-11yes
P28331-22
P28331-33
P28331-44
P28331-55

RefSeq proteins (5): NP_001186910, NP_001186911, NP_001186912, NP_001186913, NP_004997* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR000283NADH_UbQ_OxRdtase_75kDa_su_CSConserved_site
IPR0010412Fe-2S_ferredoxin-typeDomain
IPR006656Mopterin_OxRdtaseDomain
IPR006963Mopterin_OxRdtase_4Fe-4S_domDomain
IPR010228NADH_UbQ_OxRdtase_GsuFamily
IPR015405NDUFS1-like_CDomain
IPR019574NADH_UbQ_OxRdtase_Gsu_4Fe4S-bdDomain
IPR0360102Fe-2S_ferredoxin-like_sfHomologous_superfamily
IPR050123
IPR054351NADH_UbQ_OxRdtase_ferredoxinDomain

Pfam: PF00384, PF09326, PF10588, PF13510, PF22117, PF22151

Catalyzed reactions (Rhea), 1 shown:

  • a ubiquinone + NADH + 5 H(+)(in) = a ubiquinol + NAD(+) + 4 H(+)(out) (RHEA:29091)

UniProt features (92 total): helix 27, strand 19, binding site 12, turn 10, sequence variant 6, splice variant 5, modified residue 4, sequence conflict 4, domain 3, transit peptide 1, chain 1

Structure

Experimental structures (PDB)

7 structures.

PDBMethodResolution (Å)
9I4IELECTRON MICROSCOPY2.63
9TI4ELECTRON MICROSCOPY2.66
5XTBELECTRON MICROSCOPY3.4
9CWTELECTRON MICROSCOPY3.44
5XTDELECTRON MICROSCOPY3.7
5XTHELECTRON MICROSCOPY3.9
5XTIELECTRON MICROSCOPY17.4

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P28331-F192.970.90

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Ligand- & substrate-binding residues (12): 128; 131; 137; 176; 179; 182; 226; 64; 75; 78; 92; 124

Post-translational modifications (4): 84, 467, 499, 709

Function

Pathways and Gene Ontology

Reactome pathways

6 pathways

IDPathway
R-HSA-611105Respiratory electron transport
R-HSA-6799198Complex I biogenesis
R-HSA-9837999Mitochondrial protein degradation
R-HSA-1428517Aerobic respiration and respiratory electron transport
R-HSA-1430728Metabolism
R-HSA-392499Metabolism of proteins

MSigDB gene sets: 354 (showing top): GSE18804_BRAIN_VS_COLON_TUMORAL_MACROPHAGE_DN, GSE45365_CTRL_VS_MCMV_INFECTION_NK_CELL_DN, MORF_MBD4, STARK_PREFRONTAL_CORTEX_22Q11_DELETION_DN, GOBP_MITOCHONDRIAL_RESPIRATORY_CHAIN_COMPLEX_ASSEMBLY, MORF_RAD21, GOBP_ORGANOPHOSPHATE_METABOLIC_PROCESS, GOBP_NUCLEOSIDE_PHOSPHATE_BIOSYNTHETIC_PROCESS, GOBP_ORGANOPHOSPHATE_BIOSYNTHETIC_PROCESS, GOBP_CARBOHYDRATE_DERIVATIVE_METABOLIC_PROCESS, RODWELL_AGING_KIDNEY_NO_BLOOD_DN, GOBP_MONOATOMIC_CATION_TRANSPORT, COUP_01, GOBP_NUCLEOBASE_CONTAINING_SMALL_MOLECULE_METABOLIC_PROCESS, OUELLET_OVARIAN_CANCER_INVASIVE_VS_LMP_UP

GO Biological Process (7): mitochondrial electron transport, NADH to ubiquinone (GO:0006120), aerobic respiration (GO:0009060), mitochondrial respiratory chain complex I assembly (GO:0032981), proton motive force-driven mitochondrial ATP synthesis (GO:0042776), cellular respiration (GO:0045333), ATP synthesis coupled electron transport (GO:0042773), proton transmembrane transport (GO:1902600)

GO Molecular Function (9): NADH dehydrogenase (ubiquinone) activity (GO:0008137), electron transfer activity (GO:0009055), oxidoreductase activity, acting on NAD(P)H (GO:0016651), metal ion binding (GO:0046872), 2 iron, 2 sulfur cluster binding (GO:0051537), 4 iron, 4 sulfur cluster binding (GO:0051539), protein binding (GO:0005515), oxidoreductase activity (GO:0016491), iron-sulfur cluster binding (GO:0051536)

GO Cellular Component (7): mitochondrion (GO:0005739), mitochondrial inner membrane (GO:0005743), mitochondrial intermembrane space (GO:0005758), mitochondrial matrix (GO:0005759), respiratory chain complex I (GO:0045271), membrane (GO:0016020), mitochondrial membrane (GO:0031966)

Reactome top-level categories

Rollup of top-4 pathways:

CategoryPathways
Aerobic respiration and respiratory electron transport1
Respiratory electron transport1
Metabolism of proteins1
Metabolism1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
mitochondrion3
oxidative phosphorylation2
iron-sulfur cluster binding2
mitochondrial envelope2
aerobic electron transport chain1
mitochondrial ATP synthesis coupled electron transport1
cellular respiration1
NADH dehydrogenase complex assembly1
mitochondrial respiratory chain complex assembly1
proton motive force-driven ATP synthesis1
energy derivation by oxidation of organic compounds1
respiratory electron transport chain1
monoatomic cation transmembrane transport1
NADH dehydrogenase activity1
electron transfer activity1
proton transmembrane transporter activity1
oxidoreduction-driven active transmembrane transporter activity1
oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor1
active monoatomic ion transmembrane transporter activity1
molecular_function1
oxidoreductase activity1
cation binding1
binding1
catalytic activity1
metal cluster binding1
cytoplasm1
intracellular membrane-bounded organelle1
organelle inner membrane1
mitochondrial membrane1
organelle envelope lumen1
intracellular organelle lumen1
NADH dehydrogenase complex1
respiratory chain complex1
transmembrane transporter complex1
cellular anatomical structure1
organelle membrane1

Protein interactions and networks

STRING

3164 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
NDUFS1NDUFV2P19404999
NDUFS1NDUFV1P49821999
NDUFS1NDUFS2O75306998
NDUFS1NDUFS3O75489996
NDUFS1NDUFS7O75251995
NDUFS1NDUFS8O00217994
NDUFS1NDUFA2O43678989
NDUFS1NDUFS6O75380985
NDUFS1NDUFS4O43181984
NDUFS1NDUFA5Q16718946
NDUFS1NDUFA9Q16795934
NDUFS1NDUFV3P56181931
NDUFS1NDUFA6P56556920
NDUFS1NDUFS5O43920903
NDUFS1NDUFA12Q9UI09885

IntAct

207 interactions, top by confidence:

ABTypeScore
NDUFAF1NDUFS3psi-mi:“MI:0914”(association)0.790
NDUFS3NDUFS8psi-mi:“MI:0914”(association)0.730
NDUFV2NDUFS2psi-mi:“MI:0914”(association)0.730
CFTRESYT2psi-mi:“MI:2364”(proximity)0.710
CFTRESYT2psi-mi:“MI:0914”(association)0.710
NDUFS7NDUFS8psi-mi:“MI:0914”(association)0.640
NDUFS6NDUFS8psi-mi:“MI:0914”(association)0.640
CCDC120AIPpsi-mi:“MI:0914”(association)0.640
HOXC9AHCYL1psi-mi:“MI:0914”(association)0.640
NDUFA9NDUFS4psi-mi:“MI:0914”(association)0.640
NDUFS5NDUFS8psi-mi:“MI:0914”(association)0.530
NDUFA9NDUFS8psi-mi:“MI:0914”(association)0.530
NDUFA8NDUFS8psi-mi:“MI:0914”(association)0.530
NDUFV2NDUFS8psi-mi:“MI:0914”(association)0.530
PMLNDUFA2psi-mi:“MI:0914”(association)0.530
DNAJC30NDUFS8psi-mi:“MI:0914”(association)0.530

BioGRID (528): NDUFS1 (Affinity Capture-MS), NDUFS1 (Affinity Capture-MS), NDUFS1 (Affinity Capture-MS), NDUFS1 (Affinity Capture-MS), AFG3L2 (Co-fractionation), ATP1A1 (Co-fractionation), ATP6V0D1 (Co-fractionation), CLTC (Co-fractionation), GNB2 (Co-fractionation), COX2 (Co-fractionation), ND1 (Co-fractionation), NDUFA9 (Co-fractionation), NDUFS1 (Co-fractionation), NDUFS1 (Co-fractionation), NDUFS1 (Co-fractionation)

ESM2 similar proteins: A2TLM1, A2ZLS4, B4G0F3, B8BKI7, B9N1F9, B9SQI7, C6JS30, O04059, O04397, P0CB67, P0CB68, P0DPI2, P13653, P15690, P19356, P22907, P28331, P31166, P41345, P46225, P47968, P49085, Q0MQG1, Q0MQG2, Q27601, Q2QNF7, Q2R483, Q39161, Q41578, Q42850, Q42997, Q43654, Q4R6K9, Q5NAY4, Q66HF1, Q69QJ7, Q6AV34, Q6EI12, Q7XKF3, Q8W3D9

Diamond homologs: A0A1D8PU51, I3R634, O21241, O52683, P0CB67, P0CB68, P15690, P24918, P28331, P29915, P39458, P42434, P59962, P61159, P73448, P86203, P9WIV8, P9WIV9, Q06457, Q0MQG1, Q0MQG2, Q1RKD2, Q2LCP5, Q34312, Q37373, Q43644, Q46508, Q4R6K9, Q4UK22, Q66HF1, Q68VV2, Q6LXQ1, Q91VD9, Q92G92, Q94511, Q9FGI6, Q9XAR0, Q9ZCF6, D7AF63, F1SVN3

SIGNOR signaling

2 interactions.

AEffectBMechanism
metformin“down-regulates activity”NDUFS1“chemical inhibition”
NDUFS1“form complex”“NADH-ubiquinone oxidoreductase-Mitochondrial respiratory chain complex I”binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 189 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Complex I biogenesis2532.6×2e-29
Respiratory electron transport2720.2×7e-26
Aerobic respiration and respiratory electron transport2517.4×3e-22
Mitochondrial protein degradation1513.5×4e-11
Complex IV assembly712.6×1e-04
Mitochondrial protein import67.9×8e-03

GO biological processes:

GO termPartnersFoldFDR
mitochondrial electron transport, NADH to ubiquinone2146.8×6e-28
proton motive force-driven mitochondrial ATP synthesis2337.6×6e-28
aerobic respiration2233.9×1e-25
mitochondrial respiratory chain complex I assembly1230.6×8e-13

Disease & clinical

Clinical variants and AI predictions

ClinVar

505 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic15
Likely pathogenic30
Uncertain significance203
Likely benign122
Benign65

Top pathogenic / likely-pathogenic (30)

Variant IDHGVSClassification
14230NM_005006.7(NDUFS1):c.666_668del (p.Ile223del)Pathogenic
14231NM_005006.7(NDUFS1):c.755A>G (p.Asp252Gly)Pathogenic
1451930NM_005006.7(NDUFS1):c.673dup (p.Ile225fs)Pathogenic
1453980NM_005006.7(NDUFS1):c.1070del (p.Leu357fs)Pathogenic
1897450NM_005006.7(NDUFS1):c.29_42del (p.Ala9_Leu10insTer)Pathogenic
2049239NM_005006.7(NDUFS1):c.1255C>T (p.Arg419Ter)Pathogenic
214780NM_005006.7(NDUFS1):c.699_700del (p.Lys234fs)Pathogenic
2708405NM_005006.7(NDUFS1):c.1564C>T (p.Gln522Ter)Pathogenic
2895765NM_005006.7(NDUFS1):c.1963C>T (p.Arg655Ter)Pathogenic
3254827NM_005006.7(NDUFS1):c.1880_1881del (p.Leu626_Ser627insTer)Pathogenic
3681358NM_005006.7(NDUFS1):c.1589_1596del (p.Tyr530fs)Pathogenic
3896664NM_005006.7(NDUFS1):c.2029C>T (p.Gln677Ter)Pathogenic
50922NM_005006.7(NDUFS1):c.1855G>A (p.Asp619Asn)Pathogenic
50923NM_005006.7(NDUFS1):c.1669C>T (p.Arg557Ter)Pathogenic
626277NM_005006.7(NDUFS1):c.64C>T (p.Arg22Ter)Pathogenic
1193648NM_005006.7(NDUFS1):c.62-2A>GLikely pathogenic
1324785NM_005006.7(NDUFS1):c.1810C>T (p.Gln604Ter)Likely pathogenic
1506164NM_005006.7(NDUFS1):c.338+1G>ALikely pathogenic
1804014NM_005006.7(NDUFS1):c.988-2A>CLikely pathogenic
1879518NM_005006.7(NDUFS1):c.228G>T (p.Arg76Ser)Likely pathogenic
190449NM_005006.7(NDUFS1):c.758T>G (p.Val253Gly)Likely pathogenic
214775NM_005006.7(NDUFS1):c.1696A>T (p.Ile566Phe)Likely pathogenic
214777NM_005006.7(NDUFS1):c.1800G>C (p.Glu600Asp)Likely pathogenic
214779NM_005006.7(NDUFS1):c.589ACA[1] (p.Thr198del)Likely pathogenic
214784NM_005006.7(NDUFS1):c.1727G>A (p.Gly576Glu)Likely pathogenic
214785NM_005006.7(NDUFS1):c.2107G>A (p.Ala703Thr)Likely pathogenic
2430648NM_005006.7(NDUFS1):c.631_633del (p.Glu211del)Likely pathogenic
2630234NM_005006.7(NDUFS1):c.1773_1774dup (p.Lys592fs)Likely pathogenic
2690651NM_005006.7(NDUFS1):c.1119dup (p.Thr374fs)Likely pathogenic
2769975NM_005006.7(NDUFS1):c.61+1_61+3delLikely pathogenic

SpliceAI

2928 predictions. Top by Δscore:

VariantEffectΔscore
2:206124129:TGCAC:Tdonor_gain1.0000
2:206124133:C:CTdonor_gain1.0000
2:206124134:T:TTdonor_gain1.0000
2:206124153:T:Cdonor_gain1.0000
2:206126534:CAT:Cdonor_loss1.0000
2:206126535:ATACC:Adonor_loss1.0000
2:206126608:CTAG:Cacceptor_gain1.0000
2:206126609:TAG:Tacceptor_gain1.0000
2:206126610:AG:Aacceptor_gain1.0000
2:206126610:AGCT:Aacceptor_loss1.0000
2:206126611:GCTG:Gacceptor_loss1.0000
2:206126612:C:CCacceptor_gain1.0000
2:206126612:CTGCA:Cacceptor_loss1.0000
2:206126615:C:CTacceptor_gain1.0000
2:206126617:C:CTacceptor_gain1.0000
2:206126618:A:Tacceptor_gain1.0000
2:206126704:TGTTA:Tdonor_loss1.0000
2:206126705:GTTAC:Gdonor_loss1.0000
2:206126706:TTA:Tdonor_loss1.0000
2:206126707:TA:Tdonor_loss1.0000
2:206126708:A:Gdonor_loss1.0000
2:206126709:C:Gdonor_loss1.0000
2:206126843:ATCTA:Aacceptor_loss1.0000
2:206126845:C:CCacceptor_gain1.0000
2:206126851:CA:Cacceptor_gain1.0000
2:206126852:A:Cacceptor_gain1.0000
2:206126856:C:CTacceptor_gain1.0000
2:206126857:A:Tacceptor_gain1.0000
2:206126864:C:CTacceptor_gain1.0000
2:206126864:C:Tacceptor_gain1.0000

AlphaMissense

4773 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
2:206144911:A:GW285R1.000
2:206144911:A:TW285R1.000
2:206146911:C:AW243C1.000
2:206146911:C:GW243C1.000
2:206146913:A:GW243R1.000
2:206146913:A:TW243R1.000
2:206146954:C:TG229D1.000
2:206146955:C:GG229R1.000
2:206146962:G:CC226W1.000
2:206146963:C:TC226Y1.000
2:206146964:A:GC226R1.000
2:206146977:A:CN221K1.000
2:206146977:A:TN221K1.000
2:206147531:C:AR184M1.000
2:206147536:G:CC182W1.000
2:206147537:C:TC182Y1.000
2:206147538:A:GC182R1.000
2:206147545:A:CC179W1.000
2:206147546:C:AC179F1.000
2:206147546:C:GC179S1.000
2:206147546:C:TC179Y1.000
2:206147547:A:GC179R1.000
2:206147547:A:TC179S1.000
2:206147552:A:TI177K1.000
2:206147554:A:CC176W1.000
2:206147555:C:TC176Y1.000
2:206147556:A:GC176R1.000
2:206147558:C:AR175I1.000
2:206147558:C:GR175T1.000
2:206147753:C:AQ140H1.000

dbSNP variants (sampled 300 via entrez): RS1000083891 (2:206147370 C>A,G), RS1000160517 (2:206119430 GAC>G), RS1000178025 (2:206132469 C>G,T), RS1000178857 (2:206159395 C>A,G,T), RS1000240465 (2:206153020 A>C), RS1000284923 (2:206128481 G>C,T), RS1000350980 (2:206121805 G>A), RS1000401060 (2:206119037 G>C), RS1000507583 (2:206130995 A>G,T), RS1000507712 (2:206129334 C>T), RS1000572614 (2:206135825 T>C), RS1000613734 (2:206124822 G>A,C), RS1000765969 (2:206130637 G>C), RS1000797106 (2:206125092 C>CA,CT), RS1000820671 (2:206117243 A>G)

Disease associations

OMIM: gene MIM:157655 | disease phenotypes: MIM:618226, MIM:252010, MIM:256000, MIM:540000

GenCC curated gene-disease

DiseaseClassificationInheritance
Leigh syndromeDefinitiveAutosomal recessive
mitochondrial complex I deficiency, nuclear type 5DefinitiveAutosomal recessive
Leigh syndrome with leukodystrophySupportiveAutosomal recessive
mitochondrial complex I deficiencySupportiveAutosomal recessive

ClinGen Gene-Disease Validity (2)

Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.

DiseaseClassificationInheritance
mitochondrial diseaseDefinitiveAR
Leigh syndromeDefinitiveAR

Mondo (7): mitochondrial complex I deficiency, nuclear type 5 (MONDO:0032610), mitochondrial complex I deficiency, nuclear type 1 (MONDO:0100224), Leigh syndrome (MONDO:0009723), mitochondrial complex I deficiency (MONDO:0100133), MELAS syndrome (MONDO:0010789), mitochondrial disease (MONDO:0044970), (MONDO:0016815)

Orphanet (4): Leigh syndrome (Orphanet:506), Isolated complex I deficiency (Orphanet:2609), MELAS (Orphanet:550), Mitochondrial disease (Orphanet:68380)

HPO phenotypes

62 total (30 of 62 shown, HPO-id order):

HPOTerm
HP:0000007Autosomal recessive inheritance
HP:0000114Proximal tubulopathy
HP:0000252Microcephaly
HP:0000253Progressive microcephaly
HP:0000407Sensorineural hearing impairment
HP:0000486Strabismus
HP:0000508Ptosis
HP:0000543Optic disc pallor
HP:0000602Ophthalmoplegia
HP:0000618Blindness
HP:0000639Nystagmus
HP:0000648Optic atrophy
HP:0000737Irritability
HP:0000817Reduced eye contact
HP:0000819Diabetes mellitus
HP:0001138Optic neuropathy
HP:0001250Seizure
HP:0001251Ataxia
HP:0001252Hypotonia
HP:0001254Lethargy
HP:0001263Global developmental delay
HP:0001272Cerebellar atrophy
HP:0001290Generalized hypotonia
HP:0001298Encephalopathy
HP:0001324Muscle weakness
HP:0001332Dystonia
HP:0001347Hyperreflexia
HP:0001508Failure to thrive
HP:0001510Growth delay
HP:0001511Intrauterine growth retardation

GWAS associations

5 associations (top):

StudyTraitp-value
GCST005951_45Body mass index1.000000e-09
GCST006148_3Frontotemporal dementia with GRN mutation1.000000e-06
GCST007565_91Morning person1.000000e-13
GCST007576_291Chronotype1.000000e-13
GCST011494_17Daytime nap4.000000e-12

EFO canonical traits (3, from GWAS)

EFO IDTrait name
EFO:0004340body mass index
EFO:0008328chronotype measurement
EFO:0007828daytime rest measurement

MeSH disease descriptors (3)

DescriptorNameTree numbers
D007888Leigh DiseaseC10.228.140.163.100.412; C16.320.565.189.412; C16.320.565.202.810.444; C18.452.132.100.412; C18.452.648.189.412; C18.452.648.202.810.444; C18.452.660.520
D017241MELAS SyndromeC05.651.460.620.520; C10.228.140.163.100.535; C10.228.140.300.275.500; C10.668.491.500.500.500; C14.907.253.329.500; C16.320.565.189.535; C18.452.132.100.535; C18.452.648.189.535; C18.452.660.560.620.520
C537475Mitochondrial complex I deficiency (supp.)

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (2): CHEMBL2363065 (PROTEIN COMPLEX), CHEMBL6066925 (SINGLE PROTEIN)

PharmGKB: 1 entry (VIP=true, CPIC=false)

ChEMBL bioactivities

12 potent at pChembl≥5 of 22 total, top 12 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
6.12Kd764.8nMCHEMBL3752910
6.12ED50764.8nMCHEMBL3752910
6.06IC50870nMR-(+)-MARMIN-6’-UNDECANOATE
6.04IC50920nMR-(+)-MARMIN-6’-LINOLEATE
6.02Kd959.1nMCHEMBL5653589
6.02ED50959.1nMCHEMBL5653589
5.63IC502350nMR-(+)-MARMIN-6’-LINOLEATE
5.51IC503080nMR-(+)-MARMIN-6’-OCTANOATE
5.43IC503670nMR-(+)-MARMIN-6’-UNDECANOATE
5.43IC503710nMR-(+)-MARMIN-6’-OCTANOATE
5.31IC504900nM(+)-9’-ISOVALEROXYLARICIRESINOL
5.04IC509100nM(+)-9’-ISOVALEROXYLARICIRESINOL

PubChem BioAssay actives

10 with measured affinity, of 32 total; 6 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
4-methyl-3-[(1-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide2148852: Binding affinity to human NDUFS1 incubated for 45 mins by Kinobead based pull down assaykd0.7648uM
[(E,3R)-2-hydroxy-2,6-dimethyl-8-(2-oxochromen-7-yl)oxyoct-6-en-3-yl] undecanoate739270: Inhibition of mitochondrial ETC complex 1 in human T47D cells assessed as inhibition of 1% O2-induced HIF1 activation incubated for 30 mins prior to 1% O2-challenge measured after 16 hrs by luciferase reporter assayic500.8700uM
[(E,3R)-2-hydroxy-2,6-dimethyl-8-(2-oxochromen-7-yl)oxyoct-6-en-3-yl] (9Z,12Z)-octadeca-9,12-dienoate739270: Inhibition of mitochondrial ETC complex 1 in human T47D cells assessed as inhibition of 1% O2-induced HIF1 activation incubated for 30 mins prior to 1% O2-challenge measured after 16 hrs by luciferase reporter assayic500.9200uM
4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide2148852: Binding affinity to human NDUFS1 incubated for 45 mins by Kinobead based pull down assaykd0.9591uM
[(E,3R)-2-hydroxy-2,6-dimethyl-8-(2-oxochromen-7-yl)oxyoct-6-en-3-yl] octanoate739270: Inhibition of mitochondrial ETC complex 1 in human T47D cells assessed as inhibition of 1% O2-induced HIF1 activation incubated for 30 mins prior to 1% O2-challenge measured after 16 hrs by luciferase reporter assayic503.0800uM
[(2S,3R,4R)-2-(4-hydroxy-3-methoxyphenyl)-4-[(4-hydroxy-3-methoxyphenyl)methyl]oxolan-3-yl]methyl 3-methylbutanoate739269: Inhibition of mitochondrial ETC complex 1 in human T47D cells assessed as inhibition of 1,10-phenanthroline-induced HIF1 activation incubated for 30 mins prior to 1,10-phenanthroline-challenge measured after 16 hrs by luciferase reporter assayic504.9000uM

CTD chemical–gene interactions

60 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects expression, decreases methylation, increases expression4
Acetaminophenaffects cotreatment, decreases expression3
bisphenol Aincreases expression, decreases expression2
bisphenol Saffects cotreatment, decreases expression, increases expression2
Resveratrolaffects cotreatment, increases expression2
Air Pollutantsaffects cotreatment, increases abundance, increases expression, increases oxidation, affects expression2
Hydrogen Peroxideaffects cotreatment, affects reaction, decreases expression, decreases reaction2
Ozoneaffects cotreatment, increases expression, increases oxidation, increases abundance, affects expression2
Rotenonedecreases reaction, decreases expression2
Cadmium Chlorideincreases expression, decreases expression, increases abundance2
PQQ Cofactordecreases expression, decreases reaction, increases response to substance2
bisphenol Fincreases expression1
TAK-243increases sumoylation1
dicrotophosdecreases expression1
methylmercuric chloridedecreases expression1
triphenyl phosphateaffects expression1
alpha-pineneincreases expression, increases oxidation, increases abundance, affects cotreatment1
nobiletindecreases expression, decreases reaction1
sodium arsenatedecreases expression, decreases reaction1
alpha-naphthoflavonedecreases expression, decreases reaction1
arseniteaffects binding, decreases reaction1
ochratoxin Adecreases expression1
methacrylaldehydeaffects cotreatment, increases expression, increases oxidation, increases abundance1
epigallocatechin gallateaffects reaction, decreases expression, decreases reaction, affects cotreatment1
gallocatecholaffects cotreatment, affects reaction, decreases expression, decreases reaction1
epicatechin gallateaffects cotreatment, affects reaction, decreases expression, decreases reaction1
2,3,5-(triglutathion-S-yl)hydroquinoneincreases ADP-ribosylation1
2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-onedecreases expression, decreases reaction1
bisphenol Bincreases expression1
abrineincreases expression1

ChEMBL screening assays

5 unique, capped per target: 5 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL2353025BindingInhibition of mitochondrial ETC complex 1 in human T47D cells assessed as inhibition of 1% O2-induced HIF1 activation at 30 uM incubated for 30 mins prior to 1% O2-challenge measured after 16 hrs by luciferase reporter assaySemisynthetic studies identify mitochondria poisons from botanical dietary supplements–geranyloxycoumarins from Aegle marmelos. — Bioorg Med Chem

Cellosaurus cell lines

5 cell lines: 3 cancer cell line, 1 induced pluripotent stem cell, 1 finite cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_C6Q5IUFi002-AInduced pluripotent stem cellFemale
CVCL_D1P4Abcam K-562 NDUFS1 KOCancer cell lineFemale
CVCL_D2KPAbcam Raji NDUFS1 KOCancer cell lineMale
CVCL_EQ478328Finite cell lineMale
CVCL_WQ06Abcam Jurkat NDUFS1 KOCancer cell lineMale

Clinical trials (associated diseases)

128 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT01831934PHASE4COMPLETEDResponses to Influenza Vaccine in Patients With Mitochondrial Disorders (MELAS)
NCT03351998PHASE4COMPLETEDImpact of Statin Therapy on Muscle Mitochondrial Function and Aerobic Capacity
NCT05162768PHASE3COMPLETEDStudy to Evaluate Efficacy and Safety of Elamipretide in Subjects With Primary Mitochondrial Disease From Nuclear DNA Mutations (nPMD)
NCT06451757PHASE3RECRUITINGKHENERFIN Study: A Trial to Evaluate the Efficacy and Safety of Sonlicromanol in Primary Mitochondrial Diseases
NCT00432744PHASE3COMPLETEDPhase III Trial of Coenzyme Q10 in Mitochondrial Disease
NCT01721733PHASE2COMPLETEDSafety and Efficacy Study of EPI-743 in Children With Leigh Syndrome
NCT02352896PHASE2COMPLETEDLong-Term Safety and Efficacy Evaluation of EPI-743 in Children With Leigh Syndrome
NCT03747328PHASE2WITHDRAWNABI-009 (Nab-sirolimus) in Patients With Genetically-confirmed Leigh or Leigh-like Syndrome
NCT06843811PHASE2ENROLLING_BY_INVITATIONSirolimus for Leigh Syndrome
NCT06990984PHASE2NOT_YET_RECRUITINGA Dose-ranging Study of TTI-0102 in Adults and Children With Leigh Syndrome Spectrum (LSS)
NCT00068913PHASE2UNKNOWNEvaluating the Effectiveness of a Dichloroacetate in MELAS Syndrome
NCT00887562PHASE2COMPLETEDStudy of Idebenone in the Treatment of Mitochondrial Encephalopathy Lactic Acidosis & Stroke-like Episodes
NCT01603446PHASE2COMPLETEDL-arginine Therapy on Endothelium-dependent Vasodilation & Mitochondrial Metabolism in MELAS Syndrome
NCT02909400PHASE2COMPLETEDThe KHENERGY Study
NCT04165239PHASE2COMPLETEDThe KHENERGYZE Study
NCT04475549PHASE2TERMINATEDPhase 2a Study of IW-6463 in Adults Diagnosed With Mitochondrial Encephalomyopathy, Lactic Acidosis, and Stroke-like Episodes (MELAS)
NCT04604548PHASE2COMPLETEDThe KHENEREXT Study
NCT04846036PHASE2SUSPENDEDThe KHENERGYC Study
NCT06644534PHASE2RECRUITINGA Study to Assess TTI-0102 vs Placebo in MELAS Patients
NCT02398201PHASE2COMPLETEDA Study of Bezafibrate in Mitochondrial Myopathy
NCT02473445PHASE2TERMINATEDA Long-term Extension of Study RP103-MITO-001 (NCT02023866) to Assess Cysteamine Bitartrate Delayed-release Capsules (RP103) in Children With Inherited Mitochondrial Disease
NCT02500628PHASE2COMPLETEDHeart Rate Variability in Response to Metformin Challenge
NCT02805790PHASE2COMPLETEDSafety, Tolerability, Efficacy of MTP-131 for Treatment of Mitochondrial Disease in Subjects From the MMPOWER Study
NCT02976038PHASE2TERMINATEDOpen-Label Extension Trial to Characterize the Long-term Safety and Tolerability of Elamipretide in Subjects With Genetically Confirmed Primary Mitochondrial Myopathy (PMM)
NCT03177798PHASE2COMPLETEDMitochondria and Chronic Kidney Disease
NCT03866954PHASE2WITHDRAWNTrial of Erythrocyte Encapsulated Thymidine Phosphorylase In Mitochondrial Neurogastrointestinal Encephalomyopathy
NCT04802707PHASE2RECRUITINGDeoxynucleosides Pyrimidines as Treatment for Mitochondrial Depletion Syndrome
NCT05650229PHASE2RECRUITINGEfficacy of KL1333 in Adult Patients With Primary Mitochondrial Disease
NCT05972954PHASE2COMPLETEDOMT-28 in Patients With Primary Mitochondrial Disease (PMD) (PMD-OPTION)
NCT06017869PHASE2RECRUITINGEvaluate the Safety and Therapeutic Effects of a Single Intravenous Infusion (IV) of Autologous CD34+ Cells Enriched With Allogenic Placenta-derived Mitochondria in Patients With a Diagnosis of Pearson Syndrome (PS)
NCT07514338PHASE2NOT_YET_RECRUITINGOpen Label Extension to Assess Long Term Safety and Efficacy of KL1333 in Patients With Primary Mitochondrial Disease
NCT02544217PHASE1COMPLETEDA Dose-escalating Clinical Trial With KH176
NCT03056209PHASE1COMPLETEDSafety, Tolerability and Pharmacokinetic Study of KL1333 in Healthy Male Volunteers
NCT03888716PHASE1COMPLETEDA Phase Ia/Ib, SAD and MAD Study of of KL1333 in Healthy Subjects and Patients With Primary Mitochondrial Disease
NCT03952234PHASE1COMPLETEDL-Citrulline Dose Finding Safety Study in MELAS
NCT00060515PHASE1TERMINATEDRG2133 (2’,3’,5’-Tri-O-Acetyluridine) in Mitochondrial Disease
NCT02348125PHASE1UNKNOWNDoes Clinical Treatment of Mitochondrial Dysfunction Impact Autism Spectrum Disorder (ASD)?
NCT04086329PHASE1RECRUITINGValidation of Oxygen Nanosensor in Mitochondrial Myopathy
NCT04643249PHASE1COMPLETEDDrug-drug Interaction Study of KL1333 in Healthy Subjects
NCT05241262PHASE1RECRUITINGStudy of N-acetylcysteine in the Treatment of Patients With the m.3243A>G Mutation and Low Brain Glutathione Levels