Publications

Found 815 results
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2024
Zhang, H., Sim, G. Y., Kehling, A. C., Adhav, V. Annasaheb, Savidge, A., Pastore, B., Tang, W., and Nakanishi, K. (2024) Target cleavage and gene silencing by Argonautes with cityRNAs. Cell Rep. 43, 114806
Agdanowski, M. P., Castells-Graells, R., Sawaya, M. R., Cascio, D., Yeates, T. O., and Arbing, M. A. (2024) X-ray crystal structure of a designed rigidified imaging scaffold in the ligand-free conformation. Acta Crystallogr F Struct Biol Commun. 80, 107-115
Agdanowski, M. P., Castells-Graells, R., Sawaya, M. R., Cascio, D., Yeates, T. O., and Arbing, M. A. (2024) X-ray crystal structure of a designed rigidified imaging scaffold in the ligand-free conformation. Acta Crystallogr F Struct Biol Commun. 80, 107-115
2023
Mikhaylov, V., Brambley, C. A., Keller, G. L. J., Arbuiso, A. G., Weiss, L. I., Baker, B. M., and Levine, A. J. (2023) Accurate modeling of peptide-MHC structures with AlphaFold. Structure. 10.1016/j.str.2023.11.011
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
Bosnakovski, D., Toso, E. A., Ener, E. T., Gearhart, M. D., Yin, L., Lüttmann, F. F., Magli, A., Shi, K., Kim, J., Aihara, H., and Kyba, M. (2023) Antagonism among DUX family members evolved from an ancestral toxic single homeodomain protein. iScience. 26, 107823
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
Borowska, M. T., Boughter, C. T., Bunker, J. J., Guthmiller, J. J., Wilson, P. C., Roux, B., Bendelac, A., and Adams, E. J. (2023) Biochemical and biophysical characterization of natural polyreactivity in antibodies. Cell Rep. 42, 113190
Anderson, A. J., Dodge, G. J., Allen, K. N., and Imperiali, B. (2023) Co-conserved sequence motifs are predictive of substrate specificity in a family of monotopic phosphoglycosyl transferases. Protein Sci. 32, e4646
Anderson, A. J., Dodge, G. J., Allen, K. N., and Imperiali, B. (2023) Co-conserved sequence motifs are predictive of substrate specificity in a family of monotopic phosphoglycosyl transferases. Protein Sci. 32, e4646
Kimani, S. W., Perveen, S., Szewezyk, M., Zeng, H., Dong, A., Li, F., Ghiabi, P., Li, Y., Chau, I., Arrowsmith, C. H., Barsyte-Lovejoy, D., Santhakumar, V., Vedadi, M., and Halabelian, L. (2023) The co-crystal structure of Cbl-b and a small-molecule inhibitor reveals the mechanism of Cbl-b inhibition. Commun Biol. 6, 1272
Prucha, G. R., Henry, S., Hollander, K., Carter, Z. J., Spasov, K. A., Jorgensen, W. L., and Anderson, K. S. (2023) Covalent and noncovalent strategies for targeting Lys102 in HIV-1 reverse transcriptase. Eur J Med Chem. 262, 115894
Limón, L. K., Shi, K., Dao, A., Rugloski, J., Tompkins, K. J., Aihara, H., Gordon, W. R., and Evans, R. L. (2023) The crystal structure of the human smacovirus 1 Rep domain. Acta Crystallogr F Struct Biol Commun. 79, 295-300
Rettie, S. A., Campbell, K. V., Bera, A. K., Kang, A., Kozlov, S., De La Cruz, J., Adebomi, V., Zhou, G., DiMaio, F., Ovchinnikov, S., and Bhardwaj, G. (2023) Cyclic peptide structure prediction and design using AlphaFold. bioRxiv. 10.1101/2023.02.25.529956
Papadaki, G. F., Ani, O., Florio, T. J., Young, M. C., Danon, J. N., Sun, Y., Dersh, D., and Sgourakis, N. G. (2023) Decoupling peptide binding from T cell receptor recognition with engineered chimeric MHC-I molecules. Front Immunol. 14, 1116906
Carter, Z. J., Hollander, K., Spasov, K. A., Anderson, K. S., and Jorgensen, W. L. (2023) Design, synthesis, and biological testing of biphenylmethyloxazole inhibitors targeting HIV-1 reverse transcriptase. Bioorg Med Chem Lett. 84, 129216
de Miranda, R., Cuthbert, B. J., Klevorn, T., Chao, A., Mendoza, J., Arbing, M., Sieminski, P. J., Papavinasasundaram, K., Abdul-Hafiz, S., Chan, S., Sassetti, C. M., Ehrt, S., and Goulding, C. W. (2023) Differentiating the roles of Mycobacterium tuberculosis substrate binding proteins, FecB and FecB2, in iron uptake. PLoS Pathog. 19, e1011650
de Miranda, R., Cuthbert, B. J., Klevorn, T., Chao, A., Mendoza, J., Arbing, M., Sieminski, P. J., Papavinasasundaram, K., Abdul-Hafiz, S., Chan, S., Sassetti, C. M., Ehrt, S., and Goulding, C. W. (2023) Differentiating the roles of Mycobacterium tuberculosis substrate binding proteins, FecB and FecB2, in iron uptake. PLoS Pathog. 19, e1011650
Harding, R. J., Franzoni, I., Mann, M. K., Szewczyk, M. M., Mirabi, B., de Freitas, R. Ferreira, Owens, D. D. G., Ackloo, S., Scheremetjew, A., Juarez-Ornelas, K. A., Sanichar, R., Baker, R. J., Dank, C., Brown, P. J., Barsyte-Lovejoy, D., Santhakumar, V., Schapira, M., Lautens, M., and Arrowsmith, C. H. (2023) Discovery and Characterization of a Chemical Probe Targeting the Zinc-Finger Ubiquitin-Binding Domain of HDAC6. J Med Chem. 66, 10273-10288
Harding, R. J., Franzoni, I., Mann, M. K., Szewczyk, M. M., Mirabi, B., de Freitas, R. Ferreira, Owens, D. D. G., Ackloo, S., Scheremetjew, A., Juarez-Ornelas, K. A., Sanichar, R., Baker, R. J., Dank, C., Brown, P. J., Barsyte-Lovejoy, D., Santhakumar, V., Schapira, M., Lautens, M., and Arrowsmith, C. H. (2023) Discovery and Characterization of a Chemical Probe Targeting the Zinc-Finger Ubiquitin-Binding Domain of HDAC6. J Med Chem. 66, 10273-10288
Ahmad, S., Xu, J., Feng, J. A., Hutchinson, A., Zeng, H., Ghiabi, P., Dong, A., Centrella, P. A., Clark, M. A., Guié, M. - A., Guilinger, J. P., Keefe, A. D., Zhang, Y., Cerruti, T., Cuozzo, J. W., von Rechenberg, M., Bolotokova, A., Li, Y., Loppnau, P., Seitova, A., Li, Y. - Y., Santhakumar, V., Brown, P. J., Ackloo, S., and Halabelian, L. (2023) Discovery of a First-in-Class Small-Molecule Ligand for WDR91 Using DNA-Encoded Chemical Library Selection Followed by Machine Learning. J Med Chem. 66, 16051-16061
Ahmad, S., Xu, J., Feng, J. A., Hutchinson, A., Zeng, H., Ghiabi, P., Dong, A., Centrella, P. A., Clark, M. A., Guié, M. - A., Guilinger, J. P., Keefe, A. D., Zhang, Y., Cerruti, T., Cuozzo, J. W., von Rechenberg, M., Bolotokova, A., Li, Y., Loppnau, P., Seitova, A., Li, Y. - Y., Santhakumar, V., Brown, P. J., Ackloo, S., and Halabelian, L. (2023) Discovery of a First-in-Class Small-Molecule Ligand for WDR91 Using DNA-Encoded Chemical Library Selection Followed by Machine Learning. J Med Chem. 66, 16051-16061
Kimani, S. W., Owen, J., Green, S. R., Li, F., Li, Y., Dong, A., Brown, P. J., Ackloo, S., Kuter, D., Yang, C., MacAskill, M., MacKinnon, S. Scott, Arrowsmith, C. H., Schapira, M., Shahani, V., and Halabelian, L. (2023) Discovery of a Novel DCAF1 Ligand Using a Drug-Target Interaction Prediction Model: Generalizing Machine Learning to New Drug Targets. J Chem Inf Model. 63, 4070-4078
Kimani, S. W., Owen, J., Green, S. R., Li, F., Li, Y., Dong, A., Brown, P. J., Ackloo, S., Kuter, D., Yang, C., MacAskill, M., MacKinnon, S. Scott, Arrowsmith, C. H., Schapira, M., Shahani, V., and Halabelian, L. (2023) Discovery of a Novel DCAF1 Ligand Using a Drug-Target Interaction Prediction Model: Generalizing Machine Learning to New Drug Targets. J Chem Inf Model. 63, 4070-4078
Li, A. Shi Ming, Kimani, S., Wilson, B., Noureldin, M., González-Álvarez, H., Mamai, A., Hoffer, L., Guilinger, J. P., Zhang, Y., von Rechenberg, M., Disch, J. S., Mulhern, C. J., Slakman, B. L., Cuozzo, J. W., Dong, A., Poda, G., Mohammed, M., Saraon, P., Mittal, M., Modh, P., Rathod, V., Patel, B., Ackloo, S., Santhakumar, V., Szewczyk, M. M., Barsyte-Lovejoy, D., Arrowsmith, C. H., Marcellus, R., Guié, M. - A., Keefe, A. D., Brown, P. J., Halabelian, L., Al-awar, R., and Vedadi, M. (2023) Discovery of Nanomolar DCAF1 Small Molecule Ligands. J Med Chem. 66, 5041-5060

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