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Anand, R., Kaminski, P. Alexandre, and Ealick, S. E. (2004) Structures of purine 2'-deoxyribosyltransferase, substrate complexes, and the ribosylated enzyme intermediate at 2.0 A resolution. Biochemistry. 43, 2384-93
An, L., Hicks, D. R., Zorine, D., Dauparas, J., Wicky, B. I. M., Milles, L. F., Courbet, A., Bera, A. K., Nguyen, H., Kang, A., Carter, L., and Baker, D. (2023) Hallucination of closed repeat proteins containing central pockets. Nat Struct Mol Biol. 30, 1755-1760
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
Amrhein, J. A., Beyett, T. S., Feng, W. W., Krämer, A., Weckesser, J., Schaeffner, I. K., Rana, J. K., Jänne, P. A., Eck, M. J., Knapp, S., and Hanke, T. (2022) Macrocyclization of Quinazoline-Based EGFR Inhibitors Leads to Exclusive Mutant Selectivity for EGFR L858R and Del19. J Med Chem. 65, 15679-15697
Ameriks, M. K., Axe, F. U., Bembenek, S. D., Edwards, J. P., Gu, Y., Karlsson, L., Randal, M., Sun, S., Thurmond, R. L., and Zhu, J. (2009) Pyrazole-based cathepsin S inhibitors with arylalkynes as P1 binding elements. Bioorg Med Chem Lett. 19, 6131-4
Alwan, S. N., Taylor, A. B., Rhodes, J., Tidwell, M., McHardy, S. F., and LoVerde, P. T. (2023) Oxamniquine derivatives overcome Praziquantel treatment limitations for Schistosomiasis. PLoS Pathog. 19, e1011018
Althoff, T., Hibbs, R. E., Banerjee, S., and Gouaux, E. (2014) X-ray structures of GluCl in apo states reveal a gating mechanism of Cys-loop receptors. Nature. 512, 333-7
Alonzo, D. A., Chiche-Lapierre, C., Tarry, M. J., Wang, J., and T Schmeing, M. (2020) Structural basis of keto acid utilization in nonribosomal depsipeptide synthesis. Nat Chem Biol. 10.1038/s41589-020-0481-5
Almutairi, M. M., Svetlov, M. S., Hansen, D. A., Khabibullina, N. F., Klepacki, D., Kang, H. - Y., Sherman, D. H., Vázquez-Laslop, N., Polikanov, Y. S., and Mankin, A. S. (2017) Co-produced natural ketolides methymycin and pikromycin inhibit bacterial growth by preventing synthesis of a limited number of proteins. Nucleic Acids Res. 45, 9573-9582
Allali-Hassani, A., Szewczyk, M. M., Ivanochko, D., Organ, S. L., Bok, J., Ho, J. Sook Yuin, Gay, F. P. H., Li, F., Blazer, L., Eram, M. S., Halabelian, L., Dilworth, D., Luciani, G. M., Lima-Fernandes, E., Wu, Q., Loppnau, P., Palmer, N., S Talib, Z. A., Brown, P. J., Schapira, M., Kaldis, P., O'Hagan, R. C., Guccione, E., Barsyte-Lovejoy, D., Arrowsmith, C. H., Sanders, J. M., Kattar, S. D., D Bennett, J., Nicholson, B., and Vedadi, M. (2019) Discovery of a chemical probe for PRDM9. Nat Commun. 10, 5759
Alicea-Velázquez, N. L., Jakoncic, J., and Boggon, T. J. (2013) Structure-guided studies of the SHP-1/JAK1 interaction provide new insights into phosphatase catalytic domain substrate recognition. J Struct Biol. 181, 243-51
Alex, J. M., Rennie, M. L., Volpi, S., Sansone, F., Casnati, A., and Crowley, P. B. (2018) Phosphonated Calixarene as a "€œMolecular Glue"€ for Protein Crystallization. Crystal Growth & DesignCryst. Growth Des. 18, 2467-2473
Aleksandrova, E. V., J Y Wu, K., Tresco, B. I. C., Syroegin, E. A., Killeavy, E. E., Balasanyants, S. M., Svetlov, M. S., Gregory, S. T., Atkinson, G. C., Myers, A. G., and Polikanov, Y. S. (2024) Structural basis of Cfr-mediated antimicrobial resistance and mechanisms to evade it. Nat Chem Biol. 20, 867-876
Aleksandrova, E. V., Ma, C. - X., Klepacki, D., Alizadeh, F., Vázquez-Laslop, N., Liang, J. - H., Polikanov, Y. S., and Mankin, A. S. (2024) Macrolones target bacterial ribosomes and DNA gyrase and can evade resistance mechanisms. Nat Chem Biol. 10.1038/s41589-024-01685-3
Albright, R. A., Ornstein, D. L., Cao, W., Chang, W. C., Robert, D., Tehan, M., Hoyer, D., Liu, L., Stabach, P., Yang, G., De La Cruz, E. M., and Braddock, D. T. (2014) Molecular basis of purinergic signal metabolism by ectonucleotide pyrophosphatase/phosphodiesterases 4 and 1 and implications in stroke. J Biol Chem. 289, 3294-306
Airola, M. V., Watts, K. J., Bilwes, A. M., and Crane, B. R. (2010) Structure of concatenated HAMP domains provides a mechanism for signal transduction. Structure. 18, 436-48
Aik, W. Shen, Lin, M. - H., Tan, D., Tripathy, A., Marzluff, W. F., Dominski, Z., Chou, C. - Y., and Tong, L. (2017) The N-terminal domains of FLASH and Lsm11 form a 2:1 heterotrimer for histone pre-mRNA 3'-end processing. PLoS One. 12, e0186034
AhYoung, A. P., Koehl, A., Vizcarra, C. L., Cascio, D., and Egea, P. F. (2016) Structure of a putative ClpS N-end rule adaptor protein from the malaria pathogen Plasmodium falciparum. Protein Sci. 25, 689-701
AhYoung, A. P., Lu, B., Cascio, D., and Egea, P. F. (2017) Crystal structure of Mdm12 and combinatorial reconstitution of Mdm12/Mmm1 ERMES complexes for structural studies. Biochem Biophys Res Commun. 488, 129-135
AhYoung, A. P., Koehl, A., Cascio, D., and Egea, P. F. (2015) Structural mapping of the ClpB ATPases of Plasmodium falciparum: Targeting protein folding and secretion for antimalarial drug design. Protein Sci. 24, 1508-20
Ahmed, M., Goldgur, Y., Hu, J., Guo, H. - F., and Cheung, N. - K. V. (2013) In silico driven redesign of a clinically relevant antibody for the treatment of GD2 positive tumors. PLoS One. 8, e63359
Ahmed, M., Cheng, M., Zhao, Q., Goldgur, Y., Cheal, S. M., Guo, H. - F., Larson, S. M., and Cheung, N. - K. V. (2015) Humanized Affinity-matured Monoclonal Antibody 8H9 Has Potent Antitumor Activity and Binds to FG Loop of Tumor Antigen B7-H3. J Biol Chem. 290, 30018-29
Ahmad, M. Faiz, Alam, I., Huff, S. E., Pink, J., Flanagan, S. A., Shewach, D., Misko, T. A., Oleinick, N. L., Harte, W. E., Viswanathan, R., Harris, M. E., and Dealwis, C. Godfrey (2017) Potent competitive inhibition of human ribonucleotide reductase by a nonnucleoside small molecule. Proc Natl Acad Sci U S A. 114, 8241-8246
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, M. Faiz, Huff, S. E., Pink, J., Alam, I., Zhang, A., Perry, K., Harris, M. E., Misko, T., Porwal, S. K., Oleinick, N. L., Miyagi, M., Viswanathan, R., and Dealwis, C. Godfrey (2015) Identification of Non-nucleoside Human Ribonucleotide Reductase Modulators. J Med Chem. 58, 9498-509

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