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SDHD

From Wikipedia, the free encyclopedia

Protein-coding gene in the species Homo sapiens

SDHD
Identifiers
AliasesSDHD, CBT1, CII-4, CWS3, PGL, PGL1, QPs3, SDH4, cybS, succinate dehydrogenase complex subunit D, MC2DN3
External IDsOMIM:602690;MGI:1914175;HomoloGene:37718;GeneCards:SDHD;OMA:SDHD - orthologs
Gene location (Human)
Chromosome 11 (human)
Chr.Chromosome 11 (human)[1]
Chromosome 11 (human)
Genomic location for SDHD
Genomic location for SDHD
Band11q23.1Start112,086,824bp[1]
End112,120,016bp[1]
Gene location (Mouse)
Chromosome 9 (mouse)
Chr.Chromosome 9 (mouse)[2]
Chromosome 9 (mouse)
Genomic location for SDHD
Genomic location for SDHD
Band9|9 A5.3Start50,507,657bp[2]
End50,515,112bp[2]
RNA expression pattern
Bgee
HumanMouse (ortholog)
Top expressed in
  • jejunal mucosa

  • rectum

  • kidney tubule

  • biceps brachii

  • mucosa of colon

  • right ventricle

  • mucosa of sigmoid colon

  • mucosa of transverse colon

  • Skeletal muscle tissue of biceps brachii

  • Skeletal muscle tissue of rectus abdominis
Top expressed in
  • right kidney

  • interventricular septum

  • extraocular muscle

  • myocardium of ventricle

  • intercostal muscle

  • cardiac muscles

  • digastric muscle

  • cardiac muscle tissue of left ventricle

  • thoracic diaphragm

  • sternocleidomastoid muscle
More reference expression data
BioGPS
n/a
Gene ontology
Molecular function
Cellular component
Biological process
Sources:Amigo /QuickGO
Orthologs
SpeciesHumanMouse
Entrez

6392

66925

Ensembl

ENSG00000204370

ENSMUSG00000000171

UniProt

O14521

Q9CXV1

RefSeq (mRNA)

NM_001276503
NM_001276504
NM_001276506
NM_003002

NM_025848

RefSeq (protein)

NP_001263432
NP_001263433
NP_001263435
NP_002993

NP_080124

Location (UCSC)Chr 11: 112.09 – 112.12 MbChr 9: 50.51 – 50.52 Mb
PubMed search[3][4]
Wikidata
View/Edit HumanView/Edit Mouse

Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial (CybS), also known assuccinate dehydrogenase complex subunit D (SDHD), is aprotein that in humans is encoded by theSDHDgene. Names previously used for SDHD werePGL andPGL1. Succinate dehydrogenase is an importantenzyme in both thecitric acid cycle and theelectron transport chain.[5][6][7] Hereditary PGL-PCC syndrome is caused by a parental imprint of the SDHD gene. Screening can begin by 6 years of age.

Structure

[edit]

The SDHDgene is located onchromosome 11 atlocus 11q23 and it spans 8,978base pairs. There arepseudogenes for this gene onchromosomes 1,2,3,7, and18.[5] The SDHD gene produces a 17 kDa protein composed of 159amino acids.[8][9]

The SDHD protein is one of the two integral transmembrane subunits anchoring the four-subunitsuccinate dehydrogenase (Complex II)protein complex to the matrix side of themitochondrial inner membrane. The othertransmembrane subunit isSDHC. TheSDHC/SDHDdimer is connected to theSDHB electron transport subunit which, in turn, is connected to theSDHA subunit.[10]

Function

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SDHD forms part of the transmembraneprotein dimer withSDHC that anchorsComplex II to the inner mitochondrial membrane. The SDHC/SDHD dimer provides binding sites forubiquinone and water during electron transport at Complex II. Initially,SDHA oxidizessuccinate viadeprotonation at theFAD binding site, leavingfumarate, loosely bound to the active site, free to exit the protein. The electrons derived from succinate tunnel along the [Fe-S] relay in theSDHB subunit until they reach the [3Fe-4S]iron–sulfur cluster. The electrons are then transferred to an awaitingubiquinone molecule at the active site in the SDHC/SDHD dimer. The O1carbonyl oxygen of ubiquinone is oriented at the active site (image 4) byhydrogen bond interactions with Tyr83 of SDHD. The presence of electrons in the [3Fe-4S] iron sulphur cluster induces the movement of ubiquinone into a second orientation. This facilitates a second hydrogen bond interaction between the O4 carbonyl group of ubiquinone and Ser27 of subunit C. Following the first single electron reduction step, asemiquinone radical species is formed. The second electron arrives from the [3Fe-4S] cluster to provide full reduction of the ubiquinone toubiquinol.[11]

Clinical significance

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Mutations in theSDHDgene can cause familialparaganglioma.[5]Germline mutations inSDHD were first linked to hereditary paraganglioma in 2000.[12] Since then, it has been shown that mutations inSDHB and to a lesser degreeSDHC can cause paranglioma as well as familialpheochromocytoma. Notably, the tumor spectrum is different for the different mutations.SDHB mutations often lead to metastatic disease that is extra-adrenal, whileSDHD mutation related tumors are more typically benign, originating in the head and neck.[13]

The exact mechanism for tumorigenesis is not determined, but it is suspected that malfunction of the SDH complex can cause ahypoxic response in the cell that leads to tumor formation. Mutations in theSDHB,SDHC, SDHD, andSDHAF2 genes lead to the loss or reduction of SDH enzyme activity. Because the mutated SDH enzyme cannot convert succinate to fumarate, succinate accumulates in the cell. As a result, the hypoxia pathways are triggered in normal oxygen conditions, which lead to abnormal cell growth and tumor formation.[13] People living at higher altitudes (for example, the Andes mountains) are known to have an increased rate of benign paraganglioma, with the rate of disease increasing with the altitude of the population.

At least five variants in the SDHD gene have been identified in people withCowden syndrome or a similar disorder called Cowden-like syndrome. These conditions are characterized by multiple tumor-like growths calledhamartomas and an increased risk of developing certain cancers. When Cowden syndrome and Cowden-like syndrome are caused by SDHD gene mutations, the conditions are associated with a particularly high risk of developingbreast andthyroid cancers. The SDHD gene variants associated with Cowden syndrome and Cowden-like syndrome change single amino acids in the SDHD protein, which likely alters the function of the SDH enzyme. Studies suggest that the defective enzyme could allow cells to grow and divide unchecked, leading to the formation of hamartomas and cancerous tumors. However, researchers are uncertain whether the identified SDHD gene variants are directly associated with Cowden syndrome and Cowden-like syndrome. Some of the variants described above have rarely been found in people without the features of these conditions.[14]

Mutations in theSDHD gene have been found in a small number of people withCarney–Stratakis syndrome, a hereditary form of a cancer of the gastrointestinal tract calledgastrointestinal stromal tumor (GIST). Those with Carney-Stratakis syndrome present with a noncancerous tumor associated with the nervous system called aparaganglioma orpheochromocytoma (a type of paraganglioma). An inherited SDHD gene mutation predisposes an individual to cancer formation. An additional mutation that deletes the normal copy of the gene is needed to cause Carney-Stratakis syndrome. This second mutation, called asomatic mutation, is acquired during a person's lifetime and is present only in tumor cells.[14]

Mitochondrial complex II deficiency (MT-C2D), a disorder of the mitochondrial respiratory chain with heterogeneous clinical manifestations, has also been associated with mutations in theSDHD gene. Clinical features include psychomotor regression in infants, poor growth with lack of speech development, severe spastic quadriplegia, dystonia, progressive leukoencephalopathy, muscle weakness, exercise intolerance, cardiomyopathy. Some patients manifestLeigh syndrome orKearns–Sayre syndrome.[15][16][17]

Interactive pathway map

[edit]

Click on genes, proteins and metabolites below to link to respective articles.[§ 1]

  1. ^The interactive pathway map can be edited at WikiPathways:"TCACycle_WP78".

References

[edit]
  1. ^abcGRCh38: Ensembl release 89: ENSG00000204370Ensembl, May 2017
  2. ^abcGRCm38: Ensembl release 89: ENSMUSG00000000171Ensembl, May 2017
  3. ^"Human PubMed Reference:".National Center for Biotechnology Information, U.S. National Library of Medicine.
  4. ^"Mouse PubMed Reference:".National Center for Biotechnology Information, U.S. National Library of Medicine.
  5. ^abc"Entrez Gene: succinate dehydrogenase complex".
  6. ^Heutink P, van der Mey AG, Sandkuijl LA, van Gils AP, Bardoel A, Breedveld GJ, van Vliet M, van Ommen GJ, Cornelisse CJ, Oostra BA (April 1992). "A gene subject to genomic imprinting and responsible for hereditary paragangliomas maps to chromosome 11q23-qter".Human Molecular Genetics.1 (1):7–10.doi:10.1093/hmg/1.1.7.PMID 1301144.
  7. ^Hirawake H, Taniwaki M, Tamura A, Kojima S, Kita K (1997). "Cytochrome b in human complex II (succinate-ubiquinone oxidoreductase): cDNA cloning of the components in liver mitochondria and chromosome assignment of the genes for the large (SDHC) and small (SDHD) subunits to 1q21 and 11q23".Cytogenetics and Cell Genetics.79 (1–2):132–8.doi:10.1159/000134700.PMID 9533030.
  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. ^"SDHD - Succinate dehydrogenase [ubiquinone] cytochrome b small subunit, mitochondrial".Cardiac Organellar Protein Atlas Knowledgebase (COPaKB). Archived fromthe original on 19 July 2018. Retrieved18 July 2018.
  10. ^Sun F, Huo X, Zhai Y, Wang A, Xu J, Su D, Bartlam M, Rao Z (July 2005)."Crystal structure of mitochondrial respiratory membrane protein complex II".Cell.121 (7):1043–57.doi:10.1016/j.cell.2005.05.025.PMID 15989954.S2CID 16697879.
  11. ^Horsefield R, Yankovskaya V, Sexton G, Whittingham W, Shiomi K, Omura S, Byrne B, Cecchini G, Iwata S (March 2006)."Structural and computational analysis of the quinone-binding site of complex II (succinate-ubiquinone oxidoreductase): a mechanism of electron transfer and proton conduction during ubiquinone reduction".The Journal of Biological Chemistry.281 (11):7309–16.doi:10.1074/jbc.m508173200.PMID 16407191.
  12. ^Baysal BE, Ferrell RE, Willett-Brozick JE, Lawrence EC, Myssiorek D, Bosch A, van der Mey A, Taschner PE, Rubinstein WS, Myers EN, Richard CW, Cornelisse CJ, Devilee P, Devlin B (February 2000). "Mutations in SDHD, a mitochondrial complex II gene, in hereditary paraganglioma".Science.287 (5454):848–51.Bibcode:2000Sci...287..848B.doi:10.1126/science.287.5454.848.PMID 10657297.
  13. ^ab"Hereditary paraganglioma-pheochromocytoma".Genetics Home Reference. U.S. National Library of Medicine. Retrieved26 March 2015.
  14. ^ab"SDHD".Genetics Home Reference. U.S. National Library of Medicine. Retrieved26 March 2015.
  15. ^"SDHD Gene".www.genecards.org. GeneCards Human Gene Database. Retrieved30 July 2018.
  16. ^Jackson CB, Nuoffer JM, Hahn D, Prokisch H, Haberberger B, Gautschi M, Häberli A, Gallati S, Schaller A (March 2014). "Mutations in SDHD lead to autosomal recessive encephalomyopathy and isolated mitochondrial complex II deficiency".Journal of Medical Genetics.51 (3):170–5.doi:10.1136/jmedgenet-2013-101932.PMID 24367056.S2CID 25057245.
  17. ^Alston CL, Ceccatelli Berti C, Blakely EL, Oláhová M, He L, McMahon CJ, Olpin SE, Hargreaves IP, Nolli C, McFarland R, Goffrini P, O'Sullivan MJ, Taylor RW (August 2015)."A recessive homozygous p.Asp92Gly SDHD mutation causes prenatal cardiomyopathy and a severe mitochondrial complex II deficiency".Human Genetics.134 (8):869–79.doi:10.1007/s00439-015-1568-z.PMC 4495259.PMID 26008905.

This article incorporates text from theUnited States National Library of Medicine, which is in thepublic domain.


Further reading

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External links

[edit]
PDB gallery
  • 1zp0: Crystal Structure of Mitochondrial Respiratory Complex II bound with 3-nitropropionate and 2-thenoyltrifluoroacetone
    1zp0: Crystal Structure of Mitochondrial Respiratory Complex II bound with 3-nitropropionate and 2-thenoyltrifluoroacetone
  • 1zoy: Crystal Structure of Mitochondrial Respiratory Complex II from porcine heart at 2.4 Angstroms
    1zoy: Crystal Structure of Mitochondrial Respiratory Complex II from porcine heart at 2.4 Angstroms
Cycle
Anaplerotic
toacetyl-CoA
toα-ketoglutaric acid
tosuccinyl-CoA
tooxaloacetic acid
Mitochondrial
electron transport chain/
oxidative phosphorylation
Primary
Other
Ligand
Growth factors
ONCO
Receptor
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TSP
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ONCO
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TSP
Akt/PKB signaling pathway
ONCO
TSP
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TSP
MAPK/ERK pathway
ONCO
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Other/unknown
ONCO
TSP
Nucleus
Cell cycle
ONCO
TSP
DNA repair/Fanconi
TSP
Ubiquitin ligase
ONCO
TSP
Transcription factor
ONCO
TSP
Mitochondrion
Apoptosis inhibitor
Other/ungrouped
1.3.1:NAD/NADP acceptor
1.3.3:Oxygen acceptor
1.3.5:Quinone
1.3.99: Other acceptors
Activity
Regulation
Classification
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