Abstract:
:Lesion-induced thermodynamic destabilization is believed to facilitate β-hairpin intrusion by the human XPC/hHR23B nucleotide excision repair (NER) recognition factor, accompanied by partner-base flipping, as suggested by the crystal structure of the yeast orthologue (Min, J. H., and Pavletich, N. P. (2007) Nature 449, 570-575). To investigate this proposed mechanism, we employed the umbrella sampling method to compute partner base flipping free energies for the repair susceptible 14R (+)-trans-anti-DB[a,l]P-N(2)-dG modified duplex 11-mer, derived from the fjord region polycyclic aromatic hydrocarbon dibenzo[a,l]pyrene, and for the undamaged duplex. Our flipping free energy profiles show that the adduct has a lower flipping barrier by ∼7.7 kcal/mol, consistent with its thermally destabilizing impact on the damaged DNA duplex and its susceptibility to NER.
journal_name
Chem Res Toxicoljournal_title
Chemical research in toxicologyauthors
Zheng H,Cai Y,Ding S,Tang Y,Kropachev K,Zhou Y,Wang L,Wang S,Geacintov NE,Zhang Y,Broyde Sdoi
10.1021/tx1003613subject
Has Abstractpub_date
2010-12-20 00:00:00pages
1868-70issue
12eissn
0893-228Xissn
1520-5010journal_volume
23pub_type
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