Publications

Found 256 results
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2024
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
Smith, C. R., Chen, D., Christensen, J. G., Coulombe, R., Féthière, J., Gunn, R. J., Hollander, J., Jones, B., Ketcham, J. M., Khare, S., Kuehler, J., J Lawson, D., Marx, M. A., Olson, P., Pearson, K. E., Ren, C., Tsagris, D., Ulaganathan, T., Veer, I. Van't, Wang, X., and Ivetac, A. (2024) Discovery of Five SOS2 Fragment Hits with Binding Modes Determined by SOS2 X-Ray Cocrystallography. J Med Chem. 67, 774-781
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
Ohler, A., Taylor, P. E., Bledsoe, J. A., Iavarone, A. T., Gilbert, N. C., and Offenbacher, A. R. (2024) Identification of the Thermal Activation Network in Human 15-Lipoxygenase-2: Divergence from Plant Orthologs and Its Relationship to Hydrogen Tunneling Activation Barriers. ACS Catal. 14, 5444-5457
Ohler, A., Taylor, P. E., Bledsoe, J. A., Iavarone, A. T., Gilbert, N. C., and Offenbacher, A. R. (2024) Identification of the Thermal Activation Network in Human 15-Lipoxygenase-2: Divergence from Plant Orthologs and Its Relationship to Hydrogen Tunneling Activation Barriers. ACS Catal. 14, 5444-5457
Wittlinger, F., Ogboo, B. C., Shevchenko, E., Damghani, T., Pham, C. D., Schaeffner, I. K., Oligny, B. T., Chitnis, S. P., Beyett, T. S., Rasch, A., Buckley, B., Urul, D. A., Shaurova, T., May, E. W., Schaefer, E. M., Eck, M. J., Hershberger, P. A., Poso, A., Laufer, S. A., and Heppner, D. E. (2024) Linking ATP and allosteric sites to achieve superadditive binding with bivalent EGFR kinase inhibitors. Commun Chem. 7, 38
Wittlinger, F., Ogboo, B. C., Shevchenko, E., Damghani, T., Pham, C. D., Schaeffner, I. K., Oligny, B. T., Chitnis, S. P., Beyett, T. S., Rasch, A., Buckley, B., Urul, D. A., Shaurova, T., May, E. W., Schaefer, E. M., Eck, M. J., Hershberger, P. A., Poso, A., Laufer, S. A., and Heppner, D. E. (2024) Linking ATP and allosteric sites to achieve superadditive binding with bivalent EGFR kinase inhibitors. Commun Chem. 7, 38
Yirmiya, E., Leavitt, A., Lu, A., Ragucci, A. E., Avraham, C., Osterman, I., Garb, J., Antine, S. P., Mooney, S. E., Hobbs, S. J., Kranzusch, P. J., Amitai, G., and Sorek, R. (2024) Phages overcome bacterial immunity via diverse anti-defence proteins. Nature. 625, 352-359
Viennet, T., Yin, M., Jayaraj, A., Kim, W., Sun, Z. - Y. J., Fujiwara, Y., Zhang, K., Seruggia, D., Seo, H. - S., Dhe-Paganon, S., Orkin, S. H., and Arthanari, H. (2024) Structural Insights into the DNA-Binding Mechanism of BCL11A: The Integral Role of ZnF6. bioRxiv. 10.1101/2024.01.17.576058
Ojha, M., Vogt, J., Das, N. Krishna, Redmond, E., Singh, K., Banna, H. Al, Sadat, T., and Koirala, D. (2024) Structure of saguaro cactus virus 3' translational enhancer mimics 5' cap for eIF4E binding. Proc Natl Acad Sci U S A. 121, e2313677121
2023
Xie, W., Lama, L., Yang, X., Kuryavyi, V., Bhattacharya, S., Nudelman, I., Yang, G., Ouerfelli, O., J Glickman, F., Jones, R. A., Tuschl, T., and Patel, D. J. (2023) Arabinose- and xylose-modified analogs of 2',3'-cGAMP act as STING agonists. Cell Chem Biol. 10.1016/j.chembiol.2023.07.002
Das, N. K., Hollmann, N. M., Vogt, J., Sevdalis, S. E., Banna, H. A., Ojha, M., and Koirala, D. (2023) Crystal structure of a highly conserved enteroviral 5' cloverleaf RNA replication element. Nat Commun. 14, 1955
Gong, Z., Wang, W., Omari, K. El, Lebedev, A. A., Clarke, O. B., and Hendrickson, W. A. (2023) Crystal structure of LGR ligand α2/β5 from with implications for the evolution of glycoprotein hormones.. Proc Natl Acad Sci U S A. 120, e2218630120
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
Kim, D. E., Jensen, D. R., Feldman, D., Tischer, D., Saleem, A., Chow, C. M., Li, X., Carter, L., Milles, L., Nguyen, H., Kang, A., Bera, A. K., Peterson, F. C., Volkman, B. F., Ovchinnikov, S., and Baker, D. (2023) De novo design of small beta barrel proteins. Proc Natl Acad Sci U S A. 120, e2207974120
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
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
Bruce, H. A., Singer, A. U., Filippova, E. V., Blazer, L. L., Adams, J. J., Enderle, L., Ben-David, M., Radley, E. H., Mao, D. Y. L., Pau, V., Orlicky, S., Sicheri, F., Kourinov, I., Atwell, S., Kossiakoff, A. A., and Sidhu, S. S. (2023) Engineered Antigen-Binding Fragments for Enhanced Crystallization of Antibody:Antigen Complexes. Protein Sci. 10.1002/pro.4824
Huang, J., Liu, X., Sun, Y., Li, Z., Lin, M. - H., Hamilton, K., Mandel, C. R., Sandmeir, F., Conti, E., Oyala, P. H., and Tong, L. (2023) An examination of the metal ion content in the active sites of human endonucleases CPSF73 and INTS11. J Biol Chem. 299, 103047
Gkeka, A., Aresta-Branco, F., Triller, G., Vlachou, E. P., van Straaten, M., Lilic, M., Olinares, P. Dominic B., Perez, K., Chait, B. T., Blatnik, R., Ruppert, T., Verdi, J. P., C Stebbins, E., and F Papavasiliou, N. (2023) Immunodominant surface epitopes power immune evasion in the African trypanosome. Cell Rep. 42, 112262
Paranjpe, M. N., Marina, V. I., Grachev, A. A., Maviza, T. P., Tolicheva, O. A., Paleskava, A., Osterman, I. A., Sergiev, P. V., Konevega, A. L., Polikanov, Y. S., and Gagnon, M. G. (2023) Insights into the molecular mechanism of translation inhibition by the ribosome-targeting antibiotic thermorubin.. Nucleic Acids Res. 51, 449-462
Korasick, D. A., Owuocha, L. F., Kandoth, P. K., Tanner, J. J., Mitchum, M. G., and Beamer, L. J. (2023) Structural and functional analysis of two SHMT8 variants associated with soybean cyst nematode resistance. FEBS J. 10.1111/febs.16971
Li, J., Wang, L., Hahn, Q., Nowak, R. P., Viennet, T., Orellana, E. A., Burman, S. S. Roy, Yue, H., Hunkeler, M., Fontana, P., Wu, H., Arthanari, H., Fischer, E. S., and Gregory, R. I. (2023) Structural basis of regulated mG tRNA modification by METTL1-WDR4. Nature. 613, 391-397
Abskharon, R., Pan, H., Sawaya, M. R., Seidler, P. M., Olivares, E. J., Chen, Y., Murray, K. A., Zhang, J., Lantz, C., Bentzel, M., Boyer, D. R., Cascio, D., Nguyen, B. A., Hou, K., Cheng, X., Pardon, E., Williams, C. K., Nana, A. L., Vinters, H. V., Spina, S., Grinberg, L. T., Seeley, W. W., Steyaert, J., Glabe, C. G., Loo, R. R. Ogorzale, Loo, J. A., and Eisenberg, D. S. (2023) Structure-based design of nanobodies that inhibit seeding of Alzheimer's patient-extracted tau fibrils. Proc Natl Acad Sci U S A. 120, e2300258120
Morgado-Palacin, L., Brown, J. A., Martinez, T. F., Garcia-Pedrero, J. M., Forouhar, F., S Quinn, A., Reglero, C., Vaughan, J., Heydary, Y. Hajy, Donaldson, C., Rodriguez-Perales, S., Allonca, E., Granda-Diaz, R., Fernandez, A. F., Fraga, M. F., Kim, A. L., Santos-Juanes, J., Owens, D. M., Rodrigo, J. P., Saghatelian, A., and Ferrando, A. A. (2023) The TINCR ubiquitin-like microprotein is a tumor suppressor in squamous cell carcinoma. Nat Commun. 14, 1328

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