SnugDock: paratope structural optimization during antibody-antigen docking compensates for errors in antibody homology models. by Aroop Sircar, Jeffrey J Gray

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What does AlphaFold3 learn about antibody and nanobody docking, and what remains unsolved? by Fatima N. Hitawala, Jeffrey J. Gray

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Allosteric communication occurs via networks of tertiary and quaternary motions in proteins. by Michael D Daily, Jeffrey J Gray

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Reliable protein–protein docking with AlphaFold, Rosetta, and replica exchange by Ameya Harmalkar, Sergey Lyskov, Jeffrey J Gray

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Robustification of RosettaAntibody and Rosetta SnugDock. by Jeliazko R Jeliazkov, Rahel Frick, Jing Zhou, Jeffrey J Gray

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Toward enhancement of antibody thermostability and affinity by computational design in the absence of antigen by Mark Hutchinson, Jeffrey A. Ruffolo, Nantaporn Haskins, Michael Iannotti, Giuliana Vozza, Tony Pham, Nurjahan Mehzabeen, Harini Shandilya, Keith Rickert, Rebecca Croasdale-Wood, Melissa Damschroder, Ying Fu, Andrew Dippel, Jeffrey J. Gray, Gilad Kaplan

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Toward generalizable prediction of antibody thermostability using machine learning on sequence and structure features by Ameya Harmalkar, Roshan Rao, Yuxuan Richard Xie, Jonas Honer, Wibke Deisting, Jonas Anlahr, Anja Hoenig, Julia Czwikla, Eva Sienz-Widmann, Doris Rau, Austin J. Rice, Timothy P. Riley, Danqing Li, Hannah B. Catterall, Christine E. Tinberg, Jeffrey J. Gray, Kathy Y. Wei

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Discovery of a single-subunit oligosaccharyltransferase that enables glycosylation of full-length IgG antibodies in bacteria by Belen Sotomayor, Thomas C. Donahue, Sai Pooja Mahajan, May N. Taw, Sophia W. Hulbert, Erik J. Bidstrup, D. Natasha Owitipana, Alexandra Pang, Xu Yang, Souvik Ghosal, Christopher A. Alabi, Parastoo Azadi, Jeffrey J. Gray, Michael C. Jewett, Lai-Xi Wang, Matthew P. DeLisa

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