Publications

Found 478 results
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2024
J Y Wu, K., Tresco, B. I. C., Ramkissoon, A., Aleksandrova, E. V., Syroegin, E. A., N Y See, D., Liow, P., Dittemore, G. A., Yu, M., Testolin, G., Mitcheltree, M. J., Liu, R. Y., Svetlov, M. S., Polikanov, Y. S., and Myers, A. G. (2024) An antibiotic preorganized for ribosomal binding overcomes antimicrobial resistance. Science. 383, 721-726
Tao, Y., Budhipramono, A., Huang, J., Fang, M., Xie, S., Kim, J., Khivansara, V., Dominski, Z., Tong, L., De Brabander, J. K., and Nijhawan, D. (2024) Anticancer benzoxaboroles block pre-mRNA processing by directly inhibiting CPSF3. Cell Chem Biol. 31, 139-149.e14
An, L., Said, M., Tran, L., Majumder, S., Goreshnik, I., Lee, G. Rie, Juergens, D., Dauparas, J., Anishchenko, I., Coventry, B., Bera, A. K., Kang, A., Levine, P. M., Alvarez, V., Pillai, A., Norn, C., Feldman, D., Zorine, D., Hicks, D. R., Li, X., Sanchez, M. Garcia, Vafeados, D. K., Salveson, P. J., Vorobieva, A. A., and Baker, D. (2024) Binding and sensing diverse small molecules using shape-complementary pseudocycles. Science. 385, 276-282
Whitley, M. J., Tran, T. H., Rigby, M., Yi, M., Dharmaiah, S., Waybright, T. J., Ramakrishnan, N., Perkins, S., Taylor, T., Messing, S., Esposito, D., Nissley, D. V., McCormick, F., Stephen, A. G., Turbyville, T., Cornilescu, G., and Simanshu, D. K. (2024) Comparative analysis of KRAS4a and KRAS4b splice variants reveals distinctive structural and functional properties. Sci Adv. 10, eadj4137
Sahtoe, D. D., Andrzejewska, E. A., Han, H. L., Rennella, E., Schneider, M. M., Meisl, G., Ahlrichs, M., Decarreau, J., Nguyen, H., Kang, A., Levine, P., Lamb, M., Li, X., Bera, A. K., Kay, L. E., Knowles, T. P. J., and Baker, D. (2024) Design of amyloidogenic peptide traps. Nat Chem Biol. 20, 981-990
Nayak, D., Lv, D., Yuan, Y., Zhang, P., Hu, W., Nayak, A., Ruben, E. A., Lv, Z., Sung, P., Hromas, R., Zheng, G., Zhou, D., and Olsen, S. K. (2024) Development and crystal structures of a potent second-generation dual degrader of BCL-2 and BCL-xL. Nat Commun. 15, 2743
Nayak, D., Lv, D., Yuan, Y., Zhang, P., Hu, W., Nayak, A., Ruben, E. A., Lv, Z., Sung, P., Hromas, R., Zheng, G., Zhou, D., and Olsen, S. K. (2024) Development and crystal structures of a potent second-generation dual degrader of BCL-2 and BCL-xL. Nat Commun. 15, 2743
Chase, D. H., Bebenek, A. M., Nie, P., Jaime-Figueroa, S., Butrin, A., Castro, D. A., Hines, J., Linhares, B. M., and Crews, C. M. (2024) Development of a Small Molecule Downmodulator for the Transcription Factor Brachyury. Angew Chem Int Ed Engl. 63, e202316496
Ketcham, J. M., Harwood, S. J., Aranda, R., Aloiau, A. N., Bobek, B. M., Briere, D. M., Burns, A. C., Haatveit, K. Caddell, Calinisan, A., Clarine, J., Elliott, A., Engstrom, L. D., Gunn, R. J., Ivetac, A., Jones, B., Kuehler, J., J Lawson, D., Nguyen, N., Parker, C., Pearson, K. E., Rahbaek, L., Saechao, B., Wang, X., Waters, A., Waters, L., Watkins, A. H., Olson, P., Smith, C. R., Christensen, J. G., and Marx, M. A. (2024) Discovery of Pyridopyrimidinones that Selectively Inhibit the H1047R PI3Kα Mutant Protein.. J Med Chem. 67, 4936-4949
Ray, R., Mohamed, F. Amokrane N., Maurer, D. P., Huang, J., Alpay, B. A., Ronsard, L., Xie, Z., Han, J., Fernandez-Quintero, M., Phan, Q. Anh, Ursin, R. L., Vu, M., Kirsch, K. H., Prum, T., Rosado, V. C., Bracamonte-Moreno, T., Okonkwo, V., Bals, J., McCarthy, C., Nair, U., Kanekiyo, M., Ward, A. B., Schmidt, A. G., Batista, F. D., and Lingwood, D. (2024) Eliciting a single amino acid change by vaccination generates antibody protection against group 1 and group 2 influenza A viruses. Immunity. 57, 1141-1159.e11
Folger, I. B., Frota, N. F., Pistofidis, A., Niquille, D. L., Hansen, D. A., T Schmeing, M., and Hilvert, D. (2024) High-throughput reprogramming of an NRPS condensation domain. Nat Chem Biol. 20, 761-769
Gitlin, A. D., Maltzman, A., Kanno, Y., Heger, K., Reja, R., Schubert, A. F., Wierciszewski, L. J., Pantua, H., Kapadia, S. B., Harris, S. F., Webster, J. D., Newton, K., and Dixit, V. M. (2024) N4BP1 coordinates ubiquitin-dependent crosstalk within the IκB kinase family to limit Toll-like receptor signaling and inflammation.. Immunity. 57, 973-986.e7
Gama, F. H. de Souza, Dutra, L. A., Hawgood, M., Reis, C. Vinícius, Serafim, R. A. M., Ferreira, M. A., Teodoro, B. V. M., Takarada, J. Emi, Santiago, A. S., Balourdas, D. - I., Nilsson, A. - S., Urien, B., Almeida, V. M., Gileadi, C., Ramos, P. Z., Salmazo, A., Vasconcelos, S. N. S., Cunha, M. R., Mueller, S., Knapp, S., Massirer, K. B., Elkins, J. M., Gileadi, O., Mascarello, A., Lemmens, B. B. L. G., Guimarães, C. R. W., Azevedo, H., and Couñago, R. M. (2024) Novel Dihydropteridinone Derivatives As Potent Inhibitors of the Understudied Human Kinases Vaccinia-Related Kinase 1 and Casein Kinase 1δ/ε.. J Med Chem. 67, 8609-8629
Berger, S., Seeger, F., Yu, T. - Y., Aydin, M., Yang, H., Rosenblum, D., Guenin-Macé, L., Glassman, C., Arguinchona, L., Sniezek, C., Blackstone, A., Carter, L., Ravichandran, R., Ahlrichs, M., Murphy, M., Pultz, I. Swanson, Kang, A., Bera, A. K., Stewart, L., K Garcia, C., Naik, S., Spangler, J. B., Beigel, F., Siebeck, M., Gropp, R., and Baker, D. (2024) Preclinical proof of principle for orally delivered Th17 antagonist miniproteins. Cell. 187, 4305-4317.e18
Shin, H. Esther, Pan, C., Curran, D. M., Bateman, T. J., H Y Chong, D., Ng, D., Shah, M., and Moraes, T. F. (2024) Prevalence of Slam-dependent hemophilins in Gram-negative bacteria. J Bacteriol. 206, e0002724
Fram, B., Su, Y., Truebridge, I., Riesselman, A. J., Ingraham, J. B., Passera, A., Napier, E., Thadani, N. N., Lim, S., Roberts, K., Kaur, G., Stiffler, M. A., Marks, D. S., Bahl, C. D., Khan, A. R., Sander, C., and Gauthier, N. P. (2024) Simultaneous enhancement of multiple functional properties using evolution-informed protein design. Nat Commun. 15, 5141
Wachter, F., Nowak, R. P., Ficarro, S., Marto, J., and Fischer, E. S. (2024) Structural characterization of methylation-independent PP2A assembly guides alphafold2Multimer prediction of family-wide PP2A complexes. J Biol Chem. 300, 107268
Priest, J. M., Nichols, E. L., Smock, R. G., Hopkins, J. B., Mendoza, J. L., Meijers, R., Shen, K., and zkan, E. Ö. (2024) Structural insights into the formation of repulsive netrin guidance complexes. Sci Adv. 10, eadj8083
Chen, E., Trajkovski, M., Lee, H. Kyung, Nyovanie, S., Martin, K. N., Dean, W. L., Tahiliani, M., Plavec, J., and Yatsunyk, L. A. (2024) Structure of native four-repeat satellite III sequence with non-canonical base interactions. Nucleic Acids Res. 52, 3390-3405
Banayan, N. E., Loughlin, B. J., Singh, S., Forouhar, F., Lu, G., Wong, K. - H., Neky, M., Hunt, H. S., Bateman, L. B., Tamez, A., Handelman, S. K., W Price, N., and Hunt, J. F. (2024) Systematic enhancement of protein crystallization efficiency by bulk lysine-to-arginine (KR) substitution. Protein Sci. 33, e4898
2023
Li, Z., Wang, S., Nattermann, U., Bera, A. K., Borst, A. J., Yaman, M. Y., Bick, M. J., Yang, E. C., Sheffler, W., Lee, B., Seifert, S., Hura, G. L., Nguyen, H., Kang, A., Dalal, R., Lubner, J. M., Hsia, Y., Haddox, H., Courbet, A., Dowling, Q., Miranda, M., Favor, A., Etemadi, A., Edman, N. I., Yang, W., Weidle, C., Sankaran, B., Negahdari, B., Ross, M. B., Ginger, D. S., and Baker, D. (2023) Accurate computational design of three-dimensional protein crystals. Nat Mater. 10.1038/s41563-023-01683-1
Li, Z., Wang, S., Nattermann, U., Bera, A. K., Borst, A. J., Yaman, M. Y., Bick, M. J., Yang, E. C., Sheffler, W., Lee, B., Seifert, S., Hura, G. L., Nguyen, H., Kang, A., Dalal, R., Lubner, J. M., Hsia, Y., Haddox, H., Courbet, A., Dowling, Q., Miranda, M., Favor, A., Etemadi, A., Edman, N. I., Yang, W., Weidle, C., Sankaran, B., Negahdari, B., Ross, M. B., Ginger, D. S., and Baker, D. (2023) Accurate computational design of three-dimensional protein crystals. Nat Mater. 10.1038/s41563-023-01683-1
Li, Z., Wang, S., Nattermann, U., Bera, A. K., Borst, A. J., Yaman, M. Y., Bick, M. J., Yang, E. C., Sheffler, W., Lee, B., Seifert, S., Hura, G. L., Nguyen, H., Kang, A., Dalal, R., Lubner, J. M., Hsia, Y., Haddox, H., Courbet, A., Dowling, Q., Miranda, M., Favor, A., Etemadi, A., Edman, N. I., Yang, W., Weidle, C., Sankaran, B., Negahdari, B., Ross, M. B., Ginger, D. S., and Baker, D. (2023) Accurate computational design of three-dimensional protein crystals. Nat Mater. 10.1038/s41563-023-01683-1
Yang, M. Hee, Tran, T. H., Hunt, B., Agnor, R., Johnson, C. W., Shui, B., Waybright, T. J., Nowak, J. A., Stephen, A. G., Simanshu, D. K., and Haigis, K. M. (2023) Allosteric Regulation of Switch-II Domain Controls KRAS Oncogenicity. Cancer Res. 83, 3176-3183
Marathe, N., Nguyen, H. An, Alumasa, J. N., Nagy, A. B. Kuzmishi, Vazquez, M., Dunham, C. M., and Keiler, K. C. (2023) Antibiotic that inhibits -translation blocks binding of EF-Tu to tmRNA but not to tRNA. mBio. 10.1128/mbio.01461-23

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