Publications

Found 522 results
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Journal Article
Nakanishi, K., Ascano, M., Gogakos, T., Ishibe-Murakami, S., Serganov, A. A., Briskin, D., Morozov, P., Tuschl, T., and Patel, D. J. (2013) Eukaryote-specific insertion elements control human ARGONAUTE slicer activity. Cell Rep. 3, 1893-900
Xu, Y., Robev, D., Saha, N., Wang, B., Dalva, M. B., Xu, K., Himanen, J. P., and Nikolov, D. B. (2021) The Ephb2 Receptor Uses Homotypic, Head-to-Tail Interactions within Its Ectodomain as an Autoinhibitory Control Mechanism. Int J Mol Sci. 10.3390/ijms221910473
Salinas, G., Gao, W., Wang, Y., Bonilla, M., Yu, L., Novikov, A., Virginio, V. G., Ferreira, H., Vieites, M., Gladyshev, V. N., Gambino, D., and Dai, S. (2017) The enzymatic and structural basis for inhibition of Echinococcus granulosus thioredoxin glutathione reductase by gold(I). Antioxid Redox Signal. 10.1089/ars.2016.6816
Pakhomova, S., Boeglin, W. E., Neau, D. B., Bartlett, S. G., Brash, A. R., and Newcomer, M. E. (2019) An ensemble of lipoxygenase structures reveals novel conformations of the Fe coordination sphere. Protein Sci. 10.1002/pro.3602
Pakhomova, S., Boeglin, W. E., Neau, D. B., Bartlett, S. G., Brash, A. R., and Newcomer, M. E. (2019) An ensemble of lipoxygenase structures reveals novel conformations of the Fe coordination sphere. Protein Sci. 10.1002/pro.3602
Nocula-Lugowska, M., Lugowski, M., Salgia, R., and Kossiakoff, A. A. (2015) Engineering Synthetic Antibody Inhibitors Specific for LD2 or LD4 Motifs of Paxillin. J Mol Biol. 427, 2532-2547
Noh, K. - M., Wang, H., Kim, H. R., Wenderski, W., Fang, F., Li, C. H., Dewell, S., Hughes, S. H., Melnick, A. M., Patel, D. J., Li, H., and C Allis, D. (2015) Engineering of a Histone-Recognition Domain in Dnmt3a Alters the Epigenetic Landscape and Phenotypic Features of Mouse ESCs. Mol Cell. 59, 89-103
Ota, N., Davies, C. W., Kang, J., Yan, D., Scherl, A., Wong, A., Cook, R., Tao, X., Dunlap, D., Klabunde, S., Mantik, P., Mohanan, V., Lin, W. Y., McBride, J., Sadekar, S., Storek, K. M., Lupardus, P., Ye, Z., Wallweber, H. Ackerly, Kiefer, J. R., Xu, M., Chan, P., Nagapudi, K., Yi, T., and Koerber, J. T. (2025) Engineering a protease-stable, oral single-domain antibody to inhibit IL-23 signaling. Proc Natl Acad Sci U S A. 122, e2501635122
Mukherjee, S., Griffin, D. H., Horn, J. R., Rizk, S. S., Nocula-Lugowska, M., Malmqvist, M., Kim, S. S., and Kossiakoff, A. A. (2018) Engineered synthetic antibodies as probes to quantify the energetic contributions of ligand binding to conformational changes in proteins.. J Biol Chem. 10.1074/jbc.RA117.000656
Crenshaw, C. M., Nam, K., Oo, K., Kutchukian, P. S., Bowman, B. R., Karplus, M., and Verdine, G. L. (2012) Enforced presentation of an extrahelical guanine to the lesion recognition pocket of human 8-oxoguanine glycosylase, hOGG1. J Biol Chem. 287, 24916-28
Qi, Y., Spong, M. C., Nam, K., Banerjee, A., Jiralerspong, S., Karplus, M., and Verdine, G. L. (2009) Encounter and extrusion of an intrahelical lesion by a DNA repair enzyme. Nature. 462, 762-6
Samkian, A. E., Kiel, G. R., Jones, C. G., Bergman, H. M., Oktawiec, J., Nelson, H. M., and T Tilley, D. (2021) Elucidation of Diverse Solid-State Packing in a Family of Electron-Deficient Expanded Helicenes via Microcrystal Electron Diffraction (MicroED)*. Angew Chem Int Ed Engl. 60, 2493-2499
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
Araya-Secchi, R., Neel, B. L., and Sotomayor, M. (2016) An elastic element in the protocadherin-15 tip link of the inner ear. Nat Commun. 7, 13458
Wirth, S. E., Pakhomova, S., Belyaeva, O. V., Boeglin, W. E., Brash, A. R., Newcomer, M. E., Kedishvili, N. Y., and Popov, K. M. (2025) The effects of naturally occurring mutations on functionality of oxylipin metabolizing dehydrogenase reductase nine. J Biol Chem. 301, 110704
Scott, D. C., King, M. T., Baek, K., Gee, C. T., Kalathur, R., Li, J., Purser, N., Nourse, A., Chai, S. C., Vaithiyalingam, S., Chen, T., Lee, R. E., Elledge, S. J., Kleiger, G., and Schulman, B. A. (2023) E3 ligase autoinhibition by C-degron mimicry maintains C-degron substrate fidelity. Mol Cell. 83, 770-786.e9
Huang, D. T., Ayrault, O., Hunt, H. W., Taherbhoy, A. M., Duda, D. M., Scott, D. C., Borg, L. A., Neale, G., Murray, P. J., Roussel, M. F., and Schulman, B. A. (2009) E2-RING expansion of the NEDD8 cascade confers specificity to cullin modification. Mol Cell. 33, 483-95
Levsh, O., Chiang, Y. - C., Tung, C. Fai, Noel, J. P., Wang, Y., and Weng, J. - K. (2016) Dynamic Conformational States Dictate Selectivity toward the Native Substrate in a Substrate-Permissive Acyltransferase. Biochemistry. 55, 6314-6326
Nguyen, B. V., Özden, C., Dong, K., Koc, O. Can, Torres-Ocampo, A. P., Dziedzic, N., Flaherty, D., Huang, J., Sankara, S., Abromson, N. Lyn, Tomchick, D. R., Fissore, R. A., Chen, J., Garman, S. C., and Stratton, M. M. (2025) A domain-swapped CaMKII conformation facilitates linker-mediated allosteric regulation. Nat Commun. 16, 8461
Levenson-Palmer, R., Luciano, D. J., Vasilyev, N., Nuthanakanti, A., Serganov, A., and Belasco, J. G. (2022) A distinct RNA recognition mechanism governs Np decapping by RppH. Proc Natl Acad Sci U S A. 10.1073/pnas.2117318119
Rohaim, A., Vermeulen, B. J. A., Li, J., Kümmerer, F., Napoli, F., Blachowicz, L., Medeiros-Silva, J., Roux, B., and Weingarth, M. (2022) A distinct mechanism of C-type inactivation in the Kv-like KcsA mutant E71V. Nat Commun. 13, 1574
Nguyen, H. An, Sunita, S., and Dunham, C. M. (2020) Disruption of evolutionarily correlated tRNA elements impairs accurate decoding. Proc Natl Acad Sci U S A. 117, 16333-16338
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
Zhou, Y., Aliagas, I., Wang, S., Li, C. Sing, Liu, Z., Bowman, C. M., Burdick, D. J., Clark, K. R., Dening, T. J., Flygare, J., Ganti, A., Girgis, H. S., Hanan, E. J., Harris, S. F., Hu, C., Kapadia, S. B., Koehler, M. F. T., Lai, T., Liang, J., Liu, X., Ma, F., Mao, J., Nicolai, J., Sims, J., Unhayaker, S., Wai, J., Wang, X., Wu, P., Xu, Y., Yen, C. - W., Zhang, R., Elfert, T. F., Tan, M. - W., Kofoed, E. M., and Crawford, T. D. (2024) Discovery of potent dihydro-oxazinoquinolinone inhibitors of GuaB for the treatment of tuberculosis. Bioorg Med Chem Lett. 10.1016/j.bmcl.2024.130026
Barnash, K. D., The, J., Norris-Drouin, J. L., Cholensky, S. H., Worley, B. M., Li, F., Stuckey, J. I., Brown, P. J., Vedadi, M., Arrowsmith, C. H., Frye, S. V., and James, L. I. (2017) Discovery of Peptidomimetic Ligands of EED as Allosteric Inhibitors of PRC2. ACS Comb Sci. 19, 161-172

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