- Program Years: 2006-2009
- Academic Institution: California Institute of Technology
- Field of Study: Computational Biophysical Chemistry
- Academic Advisor: William Goddard
Lawrence Berkeley National Laboratory (2008)
Ph.D. Computational Chemistry, California Institute of Technology, 2009
B.S. Chemistry and Mathematics, University of Oregon, 2003
Abrol R, Sim SK, Bray JK, Trzaskowski B, Goddard WA. "Conformational Ensemble View of G Protein-Coupled Receptors and the Effect of Mutations and Ligand Binding." Methods in Enzymology. 2013; 520: 31-48.
Abrol R, Bray JK, Goddard WA. "Bihelix: Towards De Novo Structure Prediction of an Ensemble of G-Protein Coupled Receptor Conformations." Proteins. 2012 Feb; 80(2): 505-518.
Bray JK, Weiss DR, Levitt M. "Optimized Torsion-Angle Normal Modes Reproduce Conformational Changes More Accurately Than Cartesian Modes.â€ Biophysical Journal. 2011 Dec 21; 101(12): 2966-2969.
Abrol R, Kim SK, Bray JK, Griffith AR, Goddard WA. "Characterizing and Predicting the Functional and Conformational Diversity of Seven-Transmembrane Proteins.â€ Methods. 2011 Dec; 55(4): 405-414.
Bray JK. "The Development and Application of Computational Methods for the Prediction of G-Protein Coupled Receptor Structures.â€ Doctoral Thesis, California Institute of Technology, 2009.
Bray JK, Goddard WA. "The Structure of Human Serotonin 2c G-Protein-Coupled Receptor Bound to Agonists and Antagonists.â€ Journal of Molecular Graphics and Modelling. 2008 Aug; 27(1): 66-81.
Kozisek M, Bray J, Rezacova P, Saskova K, Brynda J, Pokorna J, Mammano F, Rulisek L, Konvalinka J. "Molecular Analysis of the HIV-1 Resistance Development: Enzymatic Activities, Crystal Structures, and Thermodynamics of Nelfinavir-resistant HIV Protease Mutants.â€ Journal of Molecular Biology. 2007 Dec 7; 374(4): 1005-1016.
Caballero-Manrique E, Bray JK, Deutschman WA, Dahlquist FW, Guenza MG. "A Theory of Protein Dynamics to Predict NMR Relaxation.â€ Biophysical Journal. 2007 Dec 15: 93(12): 4128-4140.
NSF Central Europe Summer Research Institute fellow, 2006
NSF GRF Honorable Mention, 2004
Summa Cum Laude, University of Oregon, 2003
Phi Beta Kappa Oregon Six, top six graduating seniors from UO, 2003
Richard Noyes Outstanding Physical Chemistry Award, top graduate in physical chemistry at UO, 2003
Clark Award for Outstanding Thesis, Awarded by UO Honors College to a graduating senior for an outstanding thesis, titled "Structure, Biological Function, and Local Dynamics of the Signal Transduction Protein Chey", 2003
Chemistry Departmental Honors, UO, 2003
CROET Summer Student Research Award, awarded by OHSU Center for Research on Occupational and Environmental Toxicology to do environmental analytical chemistry research over the summer, 2002
University of Bristol Full Tuition Scholarship, for one UO student in math or sciences to study abroad for one year at the University of Bristol, 2001-2
Mentor Graphics REU Award for Women, a stipend awarded by Mentor Graphics Corporation