XPD Helicase (3CRV)

XPD Helicase

Xeroderma pigmentosum group D (XPD) helicase is a subunit of Transcription Factor II Human (TFIIH), which aids in DNA repair.^[1] XPD helicse unwinds DNA, allowing other DNA repair enzymes to access and correct damaged regions in the DNA. Because the type of DNA damage that XPD helicase helps to fix is caused by UV light radiation, mutations in XPD helicase results in diseases characterized by light sensitivity.

Function

XPD helicase is an essential subunit, of the general transcription factor IIH (TFIIH), which is a complex that, along with other general transcription factors, help to initiate transcription and repair damaged DNA (1). XPD helicase helps to stabilize the structure of TFIIH but also plays a functional role in repairing DNA as a helicase enzyme (2). Helicases, of which XPD helicase is an example, are enzymes that unwind double-stranded DNA into single-stranded DNA so that other enzymes, like polymerases, can act upon the DNA (3). In the context of DNA repair, helicases unwind DNA, and other enzymes remove the damaged DNA and replace it with the complementary nucleotides based on the other DNA sequence. When DNA is exposed to ultraviolet (UV) radiation, adjacent nucleotide bases, often thymines, can react and form bulky pyrimidine dimers, which can block enzymes that work on DNA (4). For example, during DNA replication, thymine dimers do not fit into the active site of DNA polymerases smoothly, sometimes resulting in mismatched nucleotides. To fix this type of damage on single strands of DNA, cells employ a process called nucleotide excision repair (NER) (2). This is the type of DNA repair that TFIIH, with the help of the XPD helicase subunit, carries out to remove the damaged DNA.

Breaking the hydrogen bonds that hold the two DNA strands together requires energy, so XPD helicase is dependent on ATP (5). The ATP-dependent helicase activity of XPD helicase, however, is only required for NER, even though TFIIH participates in both repair and transcription initiation (6). XPD helicase not only unravels the DNA around the damage but also helps TFIIH in recognizing bulky lesions in DNA (7). The DNA is then threaded through the central pore of XPD helicase, which then opens up the double helix.

Disease

Mutations in XPD helicase are associated with three distinct diseases: Cockayne Syndrome (CS), Xeroderma Pigmentosum (XP), and trichothiodystrophy (TTD) (7). The common symptom between these diseases is sensitivity to UV light because of defects in the repair system that fixes mutations caused by UV radiation (2). CS is characterized by short stature, signs of premature aging, failure to gain weight, impaired development of the nervous system, and photosensitivity (8). XP is characterized by extreme sensitivity to sunlight and a higher risk of skin cancer (9). TTD is characterized by sparse and brittle hair, pregnancy-induced high blood pressure, intellectual disabilities, a higher risk of recurrent respiratory infections, and photosensitivity (10). Interestingly, only XP has been found to be associated with an increased risk of skin cancer; studies are being conducted to determine why some mutations in XPD helicase result in a higher risk of skin cancer and others do not.

Structure Description

Residues 7-283 form the Helicase ATP binding domain. Interaction with the gene MMS19 is mediated by region consisting of residues 438-637.

Structural highlights

References

1. ↑ B-Rao C, Kulkarni-Almeida A, Katkar KV, Khanna S, Ghosh U, Keche A, Shah P, Srivastava A, Korde V, Nemmani KV, Deshmukh NJ, Dixit A, Brahma MK, Bahirat U, Doshi L, Sharma R, Sivaramakrishnan H. Identification of novel isocytosine derivatives as xanthine oxidase inhibitors from a set of virtual screening hits. Bioorg Med Chem. 2012 May 1;20(9):2930-9. Epub 2012 Mar 14. PMID:22483591 doi:10.1016/j.bmc.2012.03.019

1. Mydilkova, Z., Gursky, J., Piersel, M. (2010) Transcription factor IIH- the protein complex with multiple functions, Neoplasm 57, 287-290.
2. Li, F., Fuss, J., Cheng, Q., Arvai, A., Hammel, M., Roberts, V., Cooper, P., Tainer, J. (2008) XPD helicase structures and activities: Insights into the cancer and aging phenotypes from XPD mutations, Cell 133, 789-800.
3. Tuteja, N., Tuteja, R. (2004) Unraveling DNA helicases: Motif, structure, mechanism and function, Eur J Biochem 271, 1849-1863.
4. Vink, A., Roza, L. (2001) Biological consequences of cyclobutane pyrimidine dimers, Journal of Photochemistry and Photobiology, 65, 101-104.
5. Buechner, C., Heil, K., Michels, G., Carell, T., Kisker, C., Tessmer, I. (2014) Strand-specific recognition of DNA damages by XPD provides insights into nucleotide excision repair substrate versatility, J Biol Chem, 289, 3613-3624.
6. Kuper, J., Braun, C., Elias, A., Michels, G., Sauer, F., Schmitt, D., Poterszman, A., Egly, J., Kisker., C. (2014) PLoS Biol., 12. doi: 10.1371/journal.pbio.1001954.
7. Constantinescu-Aruxandei, D., Petrovic-Stojanovska, B., Penedo, J., White, M., Naismith, J. (2016) Mechanism of DNA loading by the DNA repair helicase XPD, Nucl. Acids Res., 44, 2806-2815.
8. Nance MA, Berry SA. (1992) Cockayne syndrome: review of 140 cases, Am J Med Genet 42, 68-84. Review.
9. Hengge UR, Emmert S. (2008) Clinical features of xeroderma pigmentosum, Adv Exp Med Biol. 637, 10-8. Review.
10. Hashimoto S, Egly JM. (2009) Trichothiodystrophy view from the molecular basis of DNA repair/transcription factor TFIIH, Hum Mol Genet. 18, R224-30. doi: 10.1093/hmg/ddp390. Review.