PILATUS Publications

Papp-Wallace, K. M., Nguyen, N. Q., Jacobs, M. R., Bethel, C. R., Barnes, M. D., Kumar, V., Bajaksouzian, S., Rudin, S. D., Rather, P. N., Bhavsar, S., Ravikumar, T., Deshpande, P. K., Patil, V., Yeole, R., Bhagwat, S. S., Patel, M. V., van den Akker, F., and Bonomo, R. A. (2018) Strategic Approaches to Overcome Resistance against Gram-Negative Pathogens Using β-Lactamase Inhibitors and β-Lactam Enhancers: Activity of Three Novel Diazabicyclooctanes WCK 5153, Zidebactam (WCK 5107), and WCK 4234.. J Med Chem. 61, 4067-4086
Liu, Y., Esyunina, D., Olovnikov, I., Teplova, M., Kulbachinskiy, A., Aravin, A. A., and Patel, D. J. (2018) Accommodation of Helical Imperfections in Rhodobacter sphaeroides Argonaute Ternary Complexes with Guide RNA and Target DNA. Cell Rep. 24, 453-462
Shoffner, G. M., Wang, R., Podell, E., Cech, T. R., and Guo, F. (2018) In Crystallo Selection to Establish New RNA Crystal Contacts.. Structure. 26, 1275-1283.e3
Cosmanescu, F., Katsamba, P. S., Sergeeva, A. P., Ahlsen, G., Patel, S. D., Brewer, J. J., Tan, L., Xu, S., Xiao, Q., Nagarkar-Jaiswal, S., Nern, A., Bellen, H. J., S Zipursky, L., Honig, B., and Shapiro, L. (2018) Neuron-Subtype-Specific Expression, Interaction Affinities, and Specificity Determinants of DIP/Dpr Cell Recognition Proteins. Neuron. 100, 1385-1400.e6
Banerjee, A., Ghosh, S., Goldgur, Y., and Shuman, S. (2018) Structure and two-metal mechanism of fungal tRNA ligase. Nucleic Acids Res. 10.1093/nar/gky1275
Orman, M., Bodea, S., Funk, M. A., Del Campo, A. Martínez-, Bollenbach, M., Drennan, C. L., and Balskus, E. P. (2018) Structure-Guided Identification of a Small Molecule That Inhibits Anaerobic Choline Metabolism by Human Gut Bacteria. J Am Chem Soc. 10.1021/jacs.8b04883
Melnikov, S. V., Khabibullina, N. F., Mairhofer, E., Vargas-Rodriguez, O., Reynolds, N. M., Micura, R., Söll, D., and Polikanov, Y. S. (2018) Mechanistic insights into the slow peptide bond formation with D-amino acids in the ribosomal active site. Nucleic Acids Res. 10.1093/nar/gky1211
Hammill, J. T., Scott, D. C., Min, J., Connelly, M. C., Holbrook, G., Zhu, F., Matheny, A., Yang, L., Singh, B., Schulman, B. A., and R Guy, K. (2018) Piperidinyl Ureas Chemically Control Defective in Cullin Neddylation 1 (DCN1)-Mediated Cullin Neddylation. J Med Chem. 61, 2680-2693
De-la-Torre, P., Choudhary, D., Araya-Secchi, R., Narui, Y., and Sotomayor, M. (2018) A Mechanically Weak Extracellular Membrane-Adjacent Domain Induces Dimerization of Protocadherin-15. Biophys J. 115, 2368-2385
Liu, L. - K., and Tanner, J. J. (2018) Crystal Structure of Aldehyde Dehydrogenase 16 Reveals Trans-Hierarchical Structural Similarity and a New Dimer. J Mol Biol. 10.1016/j.jmb.2018.11.030
Kumar, N., Leonzino, M., Hancock-Cerutti, W., Horenkamp, F. A., Li, P. Q., Lees, J. A., Wheeler, H., Reinisch, K. M., and De Camilli, P. (2018) VPS13A and VPS13C are lipid transport proteins differentially localized at ER contact sites. J Cell Biol. 217, 3625-3639
Hellman, L. M., Foley, K. C., Singh, N. K., Alonso, J. A., Riley, T. P., Devlin, J. R., Ayres, C. M., Keller, G. L. J., Zhang, Y., Kooi, C. W. Vander, Nishimura, M. I., and Baker, B. M. (2018) Improving T Cell Receptor On-Target Specificity via Structure-Guided Design. Mol Ther. 10.1016/j.ymthe.2018.12.010
Arora, K., and Corbett, K. D. (2018) The conserved XPF:ERCC1-like Zip2:Spo16 complex controls meiotic crossover formation through structure-specific DNA binding. Nucleic Acids Res. 10.1093/nar/gky1273
Li, H., Sharp, R., Rutherford, K., Gupta, K., and Van Duyne, G. D. (2018) Serine Integrase attP Binding and Specificity. J Mol Biol. 430, 4401-4418
Lee, J. K., Bosnakovski, D., Toso, E. A., Dinh, T., Banerjee, S., Bohl, T. E., Shi, K., Orellana, K., Kyba, M., and Aihara, H. (2018) Crystal Structure of the Double Homeodomain of DUX4 in Complex with DNA. Cell Rep. 25, 2955-2962.e3
Goris, M., Magin, R. S., Foyn, H., Myklebust, L. M., Varland, S., Ree, R., Drazic, A., Bhambra, P., Støve, S. I., Baumann, M., Haug, B. Erik, Marmorstein, R., and Arnesen, T. (2018) Structural determinants and cellular environment define processed actin as the sole substrate of the N-terminal acetyltransferase NAA80. Proc Natl Acad Sci U S A. 115, 4405-4410
Muok, A. R., Chua, T. Khiang, Le, H., and Crane, B. R. (2018) Nucleotide Spin Labeling for ESR Spectroscopy of ATP-Binding Proteins. Applied Magnetic ResonanceApplied Magnetic Resonance. 49, 1385-1395
Hoffer, E. D., Maehigashi, T., Fredrick, K., and Dunham, C. M. (2018) Ribosomal ambiguity (ram) mutations promote the open (off) to closed (on) transition and thereby increase miscoding.. Nucleic Acids Res. 10.1093/nar/gky1178
Chan, R. T., Peters, J. K., Robart, A. R., Wiryaman, T., Rajashankar, K. R., and Toor, N. (2018) Structural basis for the second step of group II intron splicing. Nat Commun. 9, 4676
Maurici, N., Savidge, N., Lee, B. Uk, Brewer, S. H., and Phillips-Piro, C. M. (2018) Crystal structures of green fluorescent protein with the unnatural amino acid 4-nitro-L-phenylalanine. Acta Crystallogr F Struct Biol Commun. 74, 650-655
Luo, S., Xu, K., Xiang, S., Chen, J., Chen, C., Guo, C., Tong, Y., and Tong, L. (2018) High-resolution structures of inhibitor complexes of human indoleamine 2,3-dioxygenase 1 in a new crystal form. Acta Crystallogr F Struct Biol Commun. 74, 717-724
Shelke, S. A., Shao, Y., Laski, A., Koirala, D., Weissman, B. P., Fuller, J. R., Tan, X., Constantin, T. P., Waggoner, A. S., Bruchez, M. P., Armitage, B. A., and Piccirilli, J. A. (2018) Structural basis for activation of fluorogenic dyes by an RNA aptamer lacking a G-quadruplex motif. Nat Commun. 9, 4542
Chu, B., Zhang, D., Hwang, W., and Paukstelis, P. J. (2018) Crystal Structure of a Tetrameric DNA Fold-Back Quadruplex. J Am Chem Soc. 10.1021/jacs.8b10153
Brumshtein, B., Esswein, S. R., Sawaya, M. R., Rosenberg, G., Ly, A. T., Landau, M., and Eisenberg, D. S. (2018) Identification of two principal amyloid-driving segments in variable domains of Ig light chains in systemic light chain amyloidosis. J Biol Chem. 10.1074/jbc.RA118.004142
Blank, P. N., Pemberton, T. A., Chow, J. - Y., C Poulter, D., and Christianson, D. W. (2018) Crystal Structure of Cucumene Synthase, a Terpenoid Cyclase That Generates a Linear Triquinane Sesquiterpene. Biochemistry. 57, 6326-6335
Reimer, J. M., Harb, I., Ovchinnikova, O. G., Jiang, J., Whitfield, C., and T Schmeing, M. (2018) Structural Insight into a Novel Formyltransferase and Evolution to a Nonribosomal Peptide Synthetase Tailoring Domain. ACS Chem Biol. 10.1021/acschembio.8b00739
Grell, T. A. J., Bell, B. N., Nguyen, C., Dowling, D. P., Bruender, N. A., Bandarian, V., and Drennan, C. L. (2018) Crystal structure of AdoMet radical enzyme 7-carboxy-7-deazaguanine synthase from Escherichia coli suggests how modifications near [4Fe-4S] cluster engender flavodoxin specificity. Protein Sci. 10.1002/pro.3529
Knecht, K. M., Buzovetsky, O., Schneider, C., Thomas, D., Srikanth, V., Kaderali, L., Tofoleanu, F., Reiss, K., Ferreirós, N., Geisslinger, G., Batista, V. S., Ji, X., Cinatl, J., Keppler, O. T., and Xiong, Y. (2018) The structural basis for cancer drug interactions with the catalytic and allosteric sites of SAMHD1. Proc Natl Acad Sci U S A. 10.1073/pnas.1805593115
Cao, Q., Shin, W. Shik, Chan, H., Vuong, C. K., Dubois, B., Li, B., Murray, K. A., Sawaya, M. R., Feigon, J., Black, D. L., Eisenberg, D. S., and Jiang, L. (2018) Inhibiting amyloid-β cytotoxicity through its interaction with the cell surface receptor LilrB2 by structure-based design.. Nat Chem. 10.1038/s41557-018-0147-z
Martin, S. E. S., Tan, Z. - W., Itkonen, H. M., Duveau, D. Y., Paulo, J. A., Janetzko, J., Boutz, P. L., Törk, L., Moss, F. A., Thomas, C. J., Gygi, S. P., Lazarus, M. B., and Walker, S. (2018) Structure-Based Evolution of Low Nanomolar O-GlcNAc Transferase Inhibitors. J Am Chem Soc. 10.1021/jacs.8b07328
Liou, G., Chiang, Y. - C., Wang, Y., and Weng, J. - K. (2018) Mechanistic basis for the evolution of chalcone synthase catalytic cysteine reactivity in land plants. J Biol Chem. 10.1074/jbc.RA118.005695
Chen, W., Mandali, S., Hancock, S. P., Kumar, P., Collazo, M., Cascio, D., and Johnson, R. C. (2018) Multiple serine transposase dimers assemble the transposon-end synaptic complex during IS-family transposition. Elife. 10.7554/eLife.39611
Nomura, Y., Roston, D., Montemayor, E. J., Cui, Q., and Butcher, S. E. (2018) Structural and mechanistic basis for preferential deadenylation of U6 snRNA by Usb1. Nucleic Acids Res. 10.1093/nar/gky812
Ragwan, E. R., Arai, E., and Kung, Y. (2018) New Crystallographic Snapshots of Large Domain Movements in Bacterial 3-Hydroxy-3-methylglutaryl Coenzyme A Reductase. Biochemistry. 57, 5715-5725
Peek, J., Lilic, M., Montiel, D., Milshteyn, A., Woodworth, I., Biggins, J. B., Ternei, M. A., Calle, P. Y., Danziger, M., Warrier, T., Saito, K., Braffman, N., Fay, A., Glickman, M. S., Darst, S. A., Campbell, E. A., and Brady, S. F. (2018) Rifamycin congeners kanglemycins are active against rifampicin-resistant bacteria via a distinct mechanism. Nat Commun. 9, 4147

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