Journal
JOURNAL OF PHYSICAL CHEMISTRY B
Volume 122, Issue 22, Pages 5851-5859Publisher
AMER CHEMICAL SOC
DOI: 10.1021/acs.jpcb.8b03295
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Funding
- Discovery Grants of the Natural Sciences and Engineering Research Council (NSERC) of Canada
- Canada Research Chairs Program of the Natural Sciences and Engineering Research Council (NSERC) of Canada
- Compute Canada
- Burroughs Wellcome Fund Collaborative Research Travel Grant
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Nuclear factor erythroid 2 -related factor 2 (Nrf2) is a transcription factor and principal regulator of the antioxidant pathway. The Kelch domain of Kelch-like ECH-associated protein 1 (Keap1) binds to motifs in the N-terminal region of Nrf2, promoting its degradation. There is interest in developing ligands that can compete with Nrf2 for binding to Kelch, thereby activating its transcriptional activities and increasing antioxidant levels. Using experimental Delta G(bind) values of Kelch-binding motifs determined previously, a revised hydrophobicity-based model was developed for estimating Delta G(bind) from amino acid sequence and applied to rank potential uncharacterized Kelch-binding motifs identified from interaction databases and BLAST searches. Model predictions and molecular dynamics (MD) simulations suggested that full-length MAD2A binds Kelch more favorably than a high-affinity 20-mer Nrf2 E78P peptide, but that the motif in isolation is not a particularly strong binder. Endeavoring to develop shorter peptides for activating Nrf2, new designs were created based on the E78P peptide, some of which showed considerable propensity to form binding-competent structures in MD, and were predicted to interact with Kelch more favorably than the E78P peptide. The peptides could be promising new ligands for enhancing the oxidative stress response.
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