NDUFA1

Chr XXLR

NADH:ubiquinone oxidoreductase subunit A1

This protein is an essential component of mitochondrial respiratory complex I that transfers electrons from NADH to ubiquinone and anchors the complex to the inner mitochondrial membrane. Mutations cause mitochondrial complex I deficiency, nuclear type 12, which follows X-linked recessive inheritance. The pathogenic mechanism involves dominant-negative effects where mutant proteins disrupt normal complex I assembly and function.

OMIMResearchSummary from RefSeq, OMIM, UniProt, Mechanism
LOFmechanismXLRLOEUF 1.181 OMIM phenotype
Clinical SummaryNDUFA1
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Gene-Disease Validity (ClinGen)
Leigh syndrome · XLModerate

Moderate evidence — consider for supplementary testing

2 total gene-disease associations curated

Population Constraint (gnomAD)
Moderately constrained gene (pLI 0.55) — some intolerance to loss-of-function variants.
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Clinical Trials
1 active or recruiting trial — potential therapeutic options may be available
Some data sources returned errors (1)

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Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Moderate LoF intolerance
LoF Constraint
1.18LOEUF
pLI 0.553
Z-score 1.44
OE 0.00 (0.001.18)
Moderately constrained

Highly tolerant — LoF variants common in population

Missense Constraint
0.96Z-score
OE missense 0.49 (0.320.77)
14 obs / 28.5 exp
Tolerant

Mild missense constraint

Observed / Expected Ratios
LoF OE0.00 (0.001.18)
00.351.4
Missense OE0.49 (0.320.77)
00.61.4
Synonymous OE0.92
01.21.6
LoF obs/exp: 0 / 2.4Missense obs/exp: 14 / 28.5Syn Z: 0.20
Curated Mechanism (G2P)Gene2Phenotype (DDG2P) ↗
definitiveNDUFA1-related mitochondrial respiratory chain complex I deficiencyLOFXLR
DN
1.00
GOF
1.00
LOF
100th %ile

This gene has evidence for multiple mechanisms of pathogenicity (dominant-negative and gain-of-function). Both the Badonyi & Marsh prediction and the broader genomic evidence point to dominant-negative as the predominant mechanism. Different variants in this gene may act through different mechanisms — interpret in context of the specific variant.

DNprediction above median
GOFprediction above median

Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.

Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.

ClinVar Variant Classifications

0 submitted variants in ClinVar

Protein Context — Lollipop Plot

NDUFA1 · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

3D Protein StructureAlphaFold
Clinical Literature
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