1. Small molecule inhibitor of the RPA70 N-terminal protein interaction domain discovered using in silico and in vitro methods
- Author
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Gregory G. Oakley, Jason G. Glanzer, and Shengqin Liu
- Subjects
DNA Repair ,HMG-box ,DNA damage ,Clinical Biochemistry ,Drug Evaluation, Preclinical ,Oligonucleotides ,DNA, Single-Stranded ,Pharmaceutical Science ,Biochemistry ,Article ,Replication Protein A ,Drug Discovery ,Humans ,Computer Simulation ,Protein Interaction Domains and Motifs ,Protein–DNA interaction ,Molecular Biology ,Replication protein A ,Binding Sites ,DNA clamp ,Chemistry ,Organic Chemistry ,DNA-binding domain ,High-Throughput Screening Assays ,Cell biology ,DNA binding site ,Molecular Medicine ,Binding domain - Abstract
The pharmacological suppression of the DNA damage response and DNA repair can increase the therapeutic indices of conventional chemotherapeutics. Replication Protein A (RPA), the major single-stranded DNA binding protein in eukaryotes, is required for DNA replication, DNA repair, DNA recombination, and DNA damage response signaling. Through the use of high-throughput screening of 1500 compounds, we have identified a small molecule inhibitor, 15-carboxy-13-isopropylatis-13-ene-17,18-dioic acid (NSC15520), that inhibited both the binding of Rad9-GST and p53-GST fusion proteins to the RPA N-terminal DNA binding domain (DBD), interactions that are essential for robust DNA damage signaling. NSC15520 competitively inhibited the binding of p53-GST peptide with an IC(50) of 10 μM. NSC15520 also inhibited helix destabilization of a duplex DNA (dsDNA) oligonucleotide, an activity dependent on the N-terminal domain of RPA70. NSC15520 did not inhibit RPA from binding single-stranded oligonucleotides, suggesting that the action of this inhibitor is specific for the N-terminal DBD of RPA, and does not bind to DBDs essential for single-strand DNA binding. Computer modeling implicates direct competition between NSC15520 and Rad9 for the same binding surface on RPA. Inhibitors of protein-protein interactions within the N-terminus of RPA are predicted to act synergistically with DNA damaging agents and inhibitors of DNA repair. Novel compounds such as NSC15520 have the potential to serve as chemosensitizing agents.
- Published
- 2011
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