Flipping of alkylated DNA damage bridges base and nucleotide excision repair

Julie L. Tubbs, Vitaly Latypov, Sreenivas Kanugula, Amna Butt, Manana Melikishvili, Rolf Kraehenbuehl, Oliver Fleck, Andrew Marriott, Amanda J. Watson, Barbara Verbeek, Gail McGown, Mary Thorncroft, Mauro F. Santibanez-Koref, Christopher Millington, Andrew S. Arvai, Matthew D. Kroeger, Lisa A. Peterson, David M. Williams, Michael G. Fried, Geoffrey P. MargisonAnthony Pegg, John A. Tainer

Research output: Contribution to journalArticle

78 Citations (Scopus)

Abstract

Alkyltransferase-like proteins (ATLs) share functional motifs with the cancer chemotherapy target O6-alkylguanine-DNA alkyltransferase (AGT) and paradoxically protect cells from the biological effects of DNA alkylation damage, despite lacking the reactive cysteine and alkyltransferase activity of AGT. Here we determine Schizosaccharomyces pombe ATL structures without and with damaged DNA containing the endogenous lesion O6-methylguanine or cigarette-smoke-derived O6-4-(3-pyridyl)-4-oxobutylguanine. These results reveal non-enzymatic DNA nucleotide flipping plus increased DNA distortion and binding pocket size compared to AGT. Our analysis of lesion-binding site conservation identifies new ATLs in sea anemone and ancestral archaea, indicating that ATL interactions are ancestral to present-day repair pathways in all domains of life. Genetic connections to mammalian XPG (also known as ERCC5) and ERCC1 in S. pombe homologues Rad13 and Swi10 and biochemical interactions with Escherichia coli UvrA and UvrC combined with structural results reveal that ATLs sculpt alkylated DNA to create a genetic and structural intersection of base damage processing with nucleotide excision repair.

Original languageEnglish (US)
Pages (from-to)808-813
Number of pages6
JournalNature
Volume459
Issue number7248
DOIs
StatePublished - Jun 11 2009

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DNA Repair
DNA Damage
Alkyl and Aryl Transferases
Schizosaccharomyces
DNA
Sea Anemones
Archaea
Alkylation
Smoke
Tobacco Products
Cysteine
Nucleotides
Binding Sites
Escherichia coli
Drug Therapy
Neoplasms
Proteins

All Science Journal Classification (ASJC) codes

  • General

Cite this

Tubbs, J. L., Latypov, V., Kanugula, S., Butt, A., Melikishvili, M., Kraehenbuehl, R., ... Tainer, J. A. (2009). Flipping of alkylated DNA damage bridges base and nucleotide excision repair. Nature, 459(7248), 808-813. https://doi.org/10.1038/nature08076
Tubbs, Julie L. ; Latypov, Vitaly ; Kanugula, Sreenivas ; Butt, Amna ; Melikishvili, Manana ; Kraehenbuehl, Rolf ; Fleck, Oliver ; Marriott, Andrew ; Watson, Amanda J. ; Verbeek, Barbara ; McGown, Gail ; Thorncroft, Mary ; Santibanez-Koref, Mauro F. ; Millington, Christopher ; Arvai, Andrew S. ; Kroeger, Matthew D. ; Peterson, Lisa A. ; Williams, David M. ; Fried, Michael G. ; Margison, Geoffrey P. ; Pegg, Anthony ; Tainer, John A. / Flipping of alkylated DNA damage bridges base and nucleotide excision repair. In: Nature. 2009 ; Vol. 459, No. 7248. pp. 808-813.
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Tubbs, JL, Latypov, V, Kanugula, S, Butt, A, Melikishvili, M, Kraehenbuehl, R, Fleck, O, Marriott, A, Watson, AJ, Verbeek, B, McGown, G, Thorncroft, M, Santibanez-Koref, MF, Millington, C, Arvai, AS, Kroeger, MD, Peterson, LA, Williams, DM, Fried, MG, Margison, GP, Pegg, A & Tainer, JA 2009, 'Flipping of alkylated DNA damage bridges base and nucleotide excision repair', Nature, vol. 459, no. 7248, pp. 808-813. https://doi.org/10.1038/nature08076

Flipping of alkylated DNA damage bridges base and nucleotide excision repair. / Tubbs, Julie L.; Latypov, Vitaly; Kanugula, Sreenivas; Butt, Amna; Melikishvili, Manana; Kraehenbuehl, Rolf; Fleck, Oliver; Marriott, Andrew; Watson, Amanda J.; Verbeek, Barbara; McGown, Gail; Thorncroft, Mary; Santibanez-Koref, Mauro F.; Millington, Christopher; Arvai, Andrew S.; Kroeger, Matthew D.; Peterson, Lisa A.; Williams, David M.; Fried, Michael G.; Margison, Geoffrey P.; Pegg, Anthony; Tainer, John A.

In: Nature, Vol. 459, No. 7248, 11.06.2009, p. 808-813.

Research output: Contribution to journalArticle

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AU - Tubbs, Julie L.

AU - Latypov, Vitaly

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AU - Butt, Amna

AU - Melikishvili, Manana

AU - Kraehenbuehl, Rolf

AU - Fleck, Oliver

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AU - Watson, Amanda J.

AU - Verbeek, Barbara

AU - McGown, Gail

AU - Thorncroft, Mary

AU - Santibanez-Koref, Mauro F.

AU - Millington, Christopher

AU - Arvai, Andrew S.

AU - Kroeger, Matthew D.

AU - Peterson, Lisa A.

AU - Williams, David M.

AU - Fried, Michael G.

AU - Margison, Geoffrey P.

AU - Pegg, Anthony

AU - Tainer, John A.

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N2 - Alkyltransferase-like proteins (ATLs) share functional motifs with the cancer chemotherapy target O6-alkylguanine-DNA alkyltransferase (AGT) and paradoxically protect cells from the biological effects of DNA alkylation damage, despite lacking the reactive cysteine and alkyltransferase activity of AGT. Here we determine Schizosaccharomyces pombe ATL structures without and with damaged DNA containing the endogenous lesion O6-methylguanine or cigarette-smoke-derived O6-4-(3-pyridyl)-4-oxobutylguanine. These results reveal non-enzymatic DNA nucleotide flipping plus increased DNA distortion and binding pocket size compared to AGT. Our analysis of lesion-binding site conservation identifies new ATLs in sea anemone and ancestral archaea, indicating that ATL interactions are ancestral to present-day repair pathways in all domains of life. Genetic connections to mammalian XPG (also known as ERCC5) and ERCC1 in S. pombe homologues Rad13 and Swi10 and biochemical interactions with Escherichia coli UvrA and UvrC combined with structural results reveal that ATLs sculpt alkylated DNA to create a genetic and structural intersection of base damage processing with nucleotide excision repair.

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Tubbs JL, Latypov V, Kanugula S, Butt A, Melikishvili M, Kraehenbuehl R et al. Flipping of alkylated DNA damage bridges base and nucleotide excision repair. Nature. 2009 Jun 11;459(7248):808-813. https://doi.org/10.1038/nature08076