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Binding and sensing diverse small molecules using shape-complementary pseudocycles.
An L, Said M, Tran L, Majumder S, Goreshnik I, Lee GR, Juergens D, Dauparas J, Anishchenko I, Coventry B, Bera AK, Kang A, Levine PM, Alvarez V, Pillai A, Norn C, Feldman D, Zorine D, Hicks DR, Li X, Sanchez MG, Vafeados DK, Salveson PJ, Vorobieva AA, Baker D. An L, et al. Among authors: coventry b. Science. 2024 Jul 19;385(6706):276-282. doi: 10.1126/science.adn3780. Epub 2024 Jul 18. Science. 2024. PMID: 39024436 Free PMC article.
De novo design of picomolar SARS-CoV-2 miniprotein inhibitors.
Cao L, Goreshnik I, Coventry B, Case JB, Miller L, Kozodoy L, Chen RE, Carter L, Walls AC, Park YJ, Strauch EM, Stewart L, Diamond MS, Veesler D, Baker D. Cao L, et al. Among authors: coventry b. Science. 2020 Oct 23;370(6515):426-431. doi: 10.1126/science.abd9909. Epub 2020 Sep 9. Science. 2020. PMID: 32907861 Free PMC article.
Design of protein-binding proteins from the target structure alone.
Cao L, Coventry B, Goreshnik I, Huang B, Sheffler W, Park JS, Jude KM, Marković I, Kadam RU, Verschueren KHG, Verstraete K, Walsh STR, Bennett N, Phal A, Yang A, Kozodoy L, DeWitt M, Picton L, Miller L, Strauch EM, DeBouver ND, Pires A, Bera AK, Halabiya S, Hammerson B, Yang W, Bernard S, Stewart L, Wilson IA, Ruohola-Baker H, Schlessinger J, Lee S, Savvides SN, Garcia KC, Baker D. Cao L, et al. Among authors: coventry b. Nature. 2022 May;605(7910):551-560. doi: 10.1038/s41586-022-04654-9. Epub 2022 Mar 24. Nature. 2022. PMID: 35332283 Free PMC article.
De novo design of protein homodimers containing tunable symmetric protein pockets.
Hicks DR, Kennedy MA, Thompson KA, DeWitt M, Coventry B, Kang A, Bera AK, Brunette TJ, Sankaran B, Stoddard B, Baker D. Hicks DR, et al. Among authors: coventry b. Proc Natl Acad Sci U S A. 2022 Jul 26;119(30):e2113400119. doi: 10.1073/pnas.2113400119. Epub 2022 Jul 21. Proc Natl Acad Sci U S A. 2022. PMID: 35862457 Free PMC article.
De novo design of diverse small molecule binders and sensors using Shape Complementary Pseudocycles.
An L, Said M, Tran L, Majumder S, Goreshnik I, Lee GR, Juergens D, Dauparas J, Anishchenko I, Coventry B, Bera AK, Kang A, Levine PM, Alvarez V, Pillai A, Norn C, Feldman D, Zorine D, Hicks DR, Li X, Sanchez MG, Vafeados DK, Salveson PJ, Vorobieva AA, Baker D. An L, et al. Among authors: coventry b. bioRxiv [Preprint]. 2023 Dec 21:2023.12.20.572602. doi: 10.1101/2023.12.20.572602. bioRxiv. 2023. Update in: Science. 2024 Jul 19;385(6706):276-282. doi: 10.1126/science.adn3780 PMID: 38187589 Free PMC article. Updated. Preprint.
De novo design of miniprotein antagonists of cytokine storm inducers.
Huang B, Coventry B, Borowska MT, Arhontoulis DC, Exposit M, Abedi M, Jude KM, Halabiya SF, Allen A, Cordray C, Goreshnik I, Ahlrichs M, Chan S, Tunggal H, DeWitt M, Hyams N, Carter L, Stewart L, Fuller DH, Mei Y, Garcia KC, Baker D. Huang B, et al. Among authors: coventry b. Nat Commun. 2024 Aug 16;15(1):7064. doi: 10.1038/s41467-024-50919-4. Nat Commun. 2024. PMID: 39152100 Free PMC article.
Design of Diverse Asymmetric Pockets in De Novo Homo-oligomeric Proteins.
Gerben SR, Borst AJ, Hicks DR, Moczygemba I, Feldman D, Coventry B, Yang W, Bera AK, Miranda M, Kang A, Nguyen H, Baker D. Gerben SR, et al. Among authors: coventry b. Biochemistry. 2023 Jan 17;62(2):358-368. doi: 10.1021/acs.biochem.2c00497. Epub 2023 Jan 10. Biochemistry. 2023. PMID: 36627259 Free PMC article.
Improving de novo protein binder design with deep learning.
Bennett NR, Coventry B, Goreshnik I, Huang B, Allen A, Vafeados D, Peng YP, Dauparas J, Baek M, Stewart L, DiMaio F, De Munck S, Savvides SN, Baker D. Bennett NR, et al. Among authors: coventry b. Nat Commun. 2023 May 6;14(1):2625. doi: 10.1038/s41467-023-38328-5. Nat Commun. 2023. PMID: 37149653 Free PMC article.
128 results