MT-ND3

MT-ND3 is a gene of the mitochondrial genome coding for the NADH dehydrogenase 3 (ND3) protein.[4] The ND3 protein is a subunit of NADH dehydrogenase (ubiquinone), which is located in the mitochondrial inner membrane and is the largest of the five complexes of the electron transport chain.[5] Variants of MT-ND3 are associated with Mitochondrial encephalomyopathy, lactic acidosis, and stroke-like episodes (MELAS), Leigh's syndrome (LS) and Leber's hereditary optic neuropathy (LHON).[6][7]

ND3
Identifiers
AliasesND3, MTMT-NADH dehydrogenase, subunit 3 (complex I)
External IDsOMIM: 516002 MGI: 102499 HomoloGene: 5018 GeneCards: ND3
Orthologs
SpeciesHumanMouse
Entrez

4537

17718

Ensembl

ENSG00000198840

ENSMUSG00000064360

UniProt

P03897

P03899

RefSeq (mRNA)

n/a

n/a

RefSeq (protein)

n/a

NP_904335

Location (UCSC)n/aChr M: 0.01 – 0.01 Mb
PubMed search[2][3]
Wikidata
View/Edit HumanView/Edit Mouse
Location of the MT-ND3 gene in the human mitochondrial genome. MT-ND3 is one of the seven NADH dehydrogenase mitochondrial genes (yellow boxes).

Structure

General features

MT-ND3 is located in human mitochondrial DNA from base pair 10,059 to 10,404.[4] The MT-ND3 gene produces a 13 kDa protein composed of 115 amino acids.[8][9] MT-ND3 is one of seven mitochondrial genes encoding subunits of the enzyme NADH dehydrogenase (ubiquinone), together with MT-ND1, MT-ND2, MT-ND4, MT-ND4L, MT-ND5, and MT-ND6. Also known as Complex I, this enzyme is the largest of the respiratory complexes. The structure is L-shaped with a long, hydrophobic transmembrane domain and a hydrophilic domain for the peripheral arm that includes all the known redox centres and the NADH binding site. The MT-ND3 product and the rest of the mitochondrially encoded subunits are the most hydrophobic of the subunits of Complex I and form the core of the transmembrane region.[5]

Untranslated extra nucleotide

In the MT-ND3 gene from many species of birds and turtles [10] there is an extra nucleotide that is not translated to protein.[11] Translational frameshifting or RNA editing are alternative explanations for maintenance of the functionality of the ND3 reading frame in birds possessing the one-nucleotide insertion. This extra nucleotide feature suggests that turtles might be related to Archosauria, as evidenced by molecular phylogeny studies.[12][13] The absence of the extra nucleotide in crocodilians and some birds and turtles might also indicate that the corresponding taxa have lost this feature.

Function

The MT-ND3 product is a subunit of the respiratory chain Complex I that is believed to belong to the minimal assembly of core proteins required to catalyze NADH dehydrogenation and electron transfer to ubiquinone (coenzyme Q10).[14] Initially, NADH binds to Complex I and transfers two electrons to the isoalloxazine ring of the flavin mononucleotide (FMN) prosthetic arm to form FMNH2. The electrons are transferred through a series of iron-sulfur (Fe-S) clusters in the prosthetic arm and finally to coenzyme Q10 (CoQ), which is reduced to ubiquinol (CoQH2). The flow of electrons changes the redox state of the protein, resulting in a conformational change and pK shift of the ionizable side chain, which pumps four hydrogen ions out of the mitochondrial matrix.[5]

Clinical significance

Pathogenic variants of the mitochondrial gene MT-ND3 are known to cause mtDNA-associated Leigh syndrome, as are variants of MT-ATP6, MT-TL1, MT-TK, MT-TW, MT-TV, MT-ND1, MT-ND2, MT-ND4, MT-ND5, MT-ND6 and MT-CO3. Abnormalities in mitochondrial energy generation result in neurodegenerative disorders like Leigh syndrome, which is characterized by an onset of symptoms between 12 months and three years of age. The symptoms frequently present themselves following a viral infection and include movement disorders and peripheral neuropathy, as well as hypotonia, spasticity and cerebellar ataxia. Roughly half of affected patients die of respiratory or cardiac failure by the age of three. Leigh syndrome is a maternally inherited disorder and its diagnosis is established through genetic testing of the aforementioned mitochondrial genes, including MT-ND3.[6] These complex I genes have been associated with a variety of neurodegenerative disorders, including Leber's hereditary optic neuropathy (LHON), mitochondrial encephalomyopathy with stroke-like episodes (MELAS) and the previously mentioned Leigh syndrome.[7]

Interactions

MT-ND3 has been shown to have 5 binary protein-protein interactions including 2 co-complex interactions. MT-ND3 appears to interact with APP and NDUFA9.[15]

gollark: I should learn Python so that I can understand the cool Python submissions.
gollark: LyricLy will be done by 2026, since we rescheduled 2025 for 2094.
gollark: Fun idea (if it gets done in the next round it is !!NOT ME!!): implement [BEE LANGUAGE] in C, Java and Python, and make a polyglot of all those interpreters, and write the actual submission logic in [BEE LANGUAGE].
gollark: Yes, a "based" (pH > 8) implementation would implement actual forth and use that.
gollark: I definitely need you to reverse engineer #3, since I didn't write it, so do that.

References
  1. GRCm38: Ensembl release 89: ENSMUSG00000064360 - Ensembl, May 2017
  2. "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  3. "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  4. "Entrez Gene: MT-ND3 NADH dehydrogenase subunit 3".
  5. Donald Voet; Judith G. Voet; Charlotte W. Pratt (2013). "18". Fundamentals of biochemistry : life at the molecular level (4th ed.). Hoboken, NJ: Wiley. pp. 581–620. ISBN 9780470547847.
  6. Thorburn DR, Rahman S (1993–2015). "Mitochondrial DNA-Associated Leigh Syndrome and NARP". In Pagon RA, Adam MP, Ardinger HH, Wallace SE, Amemiya A, Bean LJ, Bird TD, Dolan CR, Fong CT, Smith RJ, Stephens K (eds.). GeneReviews [Internet]. Seattle (WA): University of Washington, Seattle.
  7. La Morgia C, Caporali L, Gandini F, Olivieri A, Toni F, Nassetti S, Brunetto D, Stipa C, Scaduto C, Parmeggiani A, Tonon C, Lodi R, Torroni A, Carelli V (May 2014). "Association of the mtDNA m.4171C>A/MT-ND1 mutation with both optic neuropathy and bilateral brainstem lesions". BMC Neurology. 14: 116. doi:10.1186/1471-2377-14-116. PMC 4047257. PMID 24884847.
  8. Zong NC, Li H, Li H, Lam MP, Jimenez RC, Kim CS, Deng N, Kim AK, Choi JH, Zelaya I, Liem D, Meyer D, Odeberg J, Fang C, Lu HJ, Xu T, Weiss J, Duan H, Uhlen M, Yates JR, Apweiler R, Ge J, Hermjakob H, Ping P (October 2013). "Integration of cardiac proteome biology and medicine by a specialized knowledgebase". Circulation Research. 113 (9): 1043–53. doi:10.1161/CIRCRESAHA.113.301151. PMC 4076475. PMID 23965338.
  9. "NADH-ubiquinone oxidoreductase chain 3". Cardiac Organellar Protein Atlas Knowledgebase (COPaKB).
  10. "Complete mitochondrial genome sequences". megasun.bch.umontreal.ca. Retrieved 2017-02-20.
  11. Mindell DP, Sorenson MD, Dimcheff DE (November 1998). "An extra nucleotide is not translated in mitochondrial ND3 of some birds and turtles". Molecular Biology and Evolution. 15 (11): 1568–71. doi:10.1093/oxfordjournals.molbev.a025884. PMID 12572620.
  12. Chiari Y, Cahais V, Galtier N, Delsuc F (July 2012). "Phylogenomic analyses support the position of turtles as the sister group of birds and crocodiles (Archosauria)". BMC Biology. 10: 65. doi:10.1186/1741-7007-10-65. PMC 3473239. PMID 22839781.
  13. Crawford NG, Faircloth BC, McCormack JE, Brumfield RT, Winker K, Glenn TC (October 2012). "More than 1000 ultraconserved elements provide evidence that turtles are the sister group of archosaurs". Biology Letters. 8 (5): 783–6. doi:10.1098/rsbl.2012.0331. PMC 3440978. PMID 22593086.
  14. "MT-ND3 - NADH-ubiquinone oxidoreductase chain 3 - Homo sapiens (Human)". UniProt.org: a hub for protein information. The UniProt Consortium.
  15. "5 binary interactions found for search term MT-ND3". IntAct Molecular Interaction Database. EMBL-EBI. Retrieved 2018-08-25.

Further reading
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