NDUFA11

NADH:ubiquinone oxidoreductase subunit A11, the group of NADH:ubiquinone oxidoreductase supernumerary subunits|Tim17 family

Basic information

Region (hg38): 19:5891275-5904006

Links

ENSG00000174886 ∙ NCBI:126328 ∙ OMIM:612638 ∙ HGNC:20371 ∙ Uniprot:Q86Y39 ∙ AlphaFold ∙ GenCC ∙ jax ∙ Sfari ∙ GnomAD ∙ Pubmed ∙ ClinVar

Phenotypes

GenCC

Source: genCC

• mitochondrial complex 1 deficiency, nuclear type 14 (Strong), mode of inheritance: AR
• mitochondrial complex I deficiency (Supportive), mode of inheritance: AR
• mitochondrial disease (Limited), mode of inheritance: AR

Clinical Genomic Database

Source: CGD

Condition	Inheritance	Intervention Categories	Intervention/Rationale	Manifestation Categories	References
Mitochondrial complex I deficiency, nuclear type 14	AR	General	Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing	Biochemical; Cardiovascular; Gastrointestinal; Neurologic; Ophthalmologic	11743516; 18306244
Medical treatment (eg, riboflavin, ubiquinol) may be beneficial; Individuals may have cardiac involvement

ClinVar

This is a list of variants' phenotypes submitted to ClinVar and linked to the NDUFA11 gene.

• not provided (2 variants)
• Mitochondrial complex 1 deficiency, nuclear type 14 (1 variants)

Variants pathogenicity by type

Statistics on ClinVar variants can assist in determining whether a specific variant type in the NDUFA11 gene is commonly pathogenic or not.

In the table, we include only reliable ClinVar variants with their consequences to MANE Select, Mane Plus Clinical transcripts, or transcripts with TSL equals 1. Click the count to view the source variants.

Warning: slight differences between displayed counts and the number of variants in ClinVar may occur, primarily due to (1) the application of a different transcript and/or consequence by our variant effect predictor or (2) differences in clinical significance: we classify Benign/Likely benign variants as Likely benign and Pathogenic/Likely pathogenic variants as Likely pathogenic.

Variant type	Pathogenic	Likely pathogenic	VUS	Likely benign	Benign	Sum
synonymous			2	10		12
missense			36			36
nonsense			1			1
start loss						0
frameshift						0
inframe indel						0
splice donor/acceptor (+/-2bp)	1	2				3
splice region	1		1	5	1	8
non coding			6	13	3	22
Total	1	2	45	23	3

Variants in NDUFA11

This is a list of pathogenic ClinVar variants found in the NDUFA11 region.

You can filter this list by clicking the number of variants in the Variants pathogenicity by type table.

Position	Type	Phenotype	Significance	ClinVar
19-5892673-C-T			Benign (Jul 09, 2018)
19-5892732-C-T			Benign (Jun 23, 2018)
19-5892759-C-T			Benign (Jun 23, 2018)
19-5892786-T-C			Benign (Jun 28, 2018)
19-5892812-G-C			Likely benign (Jul 15, 2018)
19-5892932-C-T		not specified	Likely benign (Aug 01, 2023)
19-5892943-T-C		Mitochondrial complex 1 deficiency, nuclear type 14	Benign (Sep 05, 2021)
19-5892990-G-C		not specified	Likely benign (Jan 10, 2013)
19-5893003-CGGGGTGGGTGT-C		Mitochondrial complex 1 deficiency, nuclear type 14	Uncertain significance (Mar 26, 2024)
19-5893045-G-A		Mitochondrial complex 1 deficiency, nuclear type 14	Uncertain significance (Jun 27, 2023)
19-5893047-G-A			Benign (Mar 03, 2015)
19-5893056-T-C		not specified	Likely benign (Nov 12, 2021)
19-5893087-A-T			Likely benign (Mar 03, 2015)
19-5893092-C-T		not specified	Uncertain significance (Aug 04, 2021)
19-5893094-C-T			Likely benign (Mar 01, 2024)
19-5893110-G-A		Mitochondrial complex 1 deficiency, nuclear type 14 • not specified	Uncertain significance (Sep 16, 2021)
19-5893132-CAG-C		Mitochondrial complex 1 deficiency, nuclear type 14	Uncertain significance (Dec 15, 2022)
19-5893144-C-A		NDUFA11-related disorder	Likely benign (Jul 16, 2023)
19-5893210-C-G		not specified	Benign/Likely benign (Jul 01, 2024)
19-5893214-C-T		not specified	Benign (Mar 17, 2014)
19-5893226-G-A		NDUFA11-related disorder	Likely benign (Apr 20, 2020)
19-5893242-G-A		NDUFA11-related disorder	Uncertain significance (Oct 25, 2023)
19-5893506-G-A			Likely benign (Jul 27, 2018)
19-5893614-A-T			Benign (Jul 09, 2018)
19-5894573-G-A			Benign (Jun 14, 2018)

GnomAD

Source: gnomAD

Gene	Type	Bio Type	Transcript	Coding Exons	Length
NDUFA11	protein_coding	protein_coding	ENST00000418389	4	12731

pLI Probability LOF Intolerant	pRec Probability LOF Recessive	Individuals with no LOFs	Individuals with Homozygous LOFs	Individuals with Heterozygous LOFs	Defined	p
0.0178	0.738	125699	0	2	125701	0.00000796

	Z-Score	Observed	Expected	Observed/Expected	Mutation Rate	Total Possible in Transcript
Missense	0.541	117	135	0.869	0.00000802	1409
Missense in Polyphen		31	34.753	0.892		337
Synonymous	0.518	55	60.1	0.915	0.00000426	495
Loss of Function	0.769	3	4.82	0.622	2.04e-7	59

LoF frequencies by population

Ethnicity	Sum of pLOFs	p
African & African-American	0.00	0.00
Ashkenazi Jewish	0.00	0.00
East Asian	0.00	0.00
Finnish	0.00	0.00
European (Non-Finnish)	0.00000879	0.00000879
Middle Eastern	0.00	0.00
South Asian	0.0000327	0.0000327
Other	0.00	0.00

dbNSFP

Source: dbNSFP

• Function: FUNCTION: Accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), that is believed not to be involved in catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone. {ECO:0000269|PubMed:27626371}.
• Disease: DISEASE: Mitochondrial complex I deficiency (MT-C1D) [MIM:252010]: A disorder of the mitochondrial respiratory chain that causes a wide range of clinical manifestations 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. {ECO:0000269|PubMed:18306244}. Note=The disease is caused by mutations affecting the gene represented in this entry.
• Pathway: Retrograde endocannabinoid signaling - Homo sapiens (human);Non-alcoholic fatty liver disease (NAFLD) - Homo sapiens (human);Alzheimer,s disease - Homo sapiens (human);Huntington,s disease - Homo sapiens (human);Thermogenesis - Homo sapiens (human);Oxidative phosphorylation - Homo sapiens (human);Parkinson,s disease - Homo sapiens (human);Metformin Pathway, Pharmacodynamic;Oxidative phosphorylation;Respiratory electron transport;The citric acid (TCA) cycle and respiratory electron transport;Metabolism;Complex I biogenesis;Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins. (Consensus)

Recessive Scores

• pRec: 0.0858

Haploinsufficiency Scores

• pHI: 0.0621
• hipred: N
• hipred_score: 0.112
• ghis: 0.410

Essentials

• essential_gene_CRISPR: E
• essential_gene_CRISPR2: E
• essential_gene_gene_trap: N
• gene_indispensability_pred: N
• gene_indispensability_score: 0.416

Gene Damage Prediction

	All	Recessive	Dominant
Mendelian	Medium	Medium	Medium
Primary Immunodeficiency	Medium	Medium	Medium
Cancer	Medium	Medium	Medium

Mouse Genome Informatics

• Gene name: Ndufa11

Gene ontology

• Biological process: mitochondrial respiratory chain complex I assembly;oxidation-reduction process
• Cellular component: mitochondrion;mitochondrial inner membrane;mitochondrial respiratory chain complex I;integral component of membrane