My group's research is focused on developing predictive models of molecular recognition using high-resolution structural modeling. We are currently working to predict the specificity of protein-DNA and protein-peptide interactions. We develop and apply new algorithms for molecular modeling within the framework of the Rosetta software package, a set of tools for the prediction and design of protein structures and interactions.
Andre I, Bradley P, Wang C, Baker D (2007) Prediction of the structure of symmetrical protein assemblies, Proc Natl Acad Sci U S A, 104 (45), 17656-61
Wang C, Bradley P, Baker D (2007) Protein-protein docking with backbone flexibility, J Mol Biol, 373 (2), 503-19
Wang C, Schueler-Furman O, Andre I, London N, Fleishman SJ, Bradley P, Qian B, Baker D (2007) RosettaDock in CAPRI rounds 6-12, Proteins, 69 (4), 758-63
Qian B, Raman VS, Das R, Bradley P, McCoy AJ, Read RJ, Baker D (2007) High resolution protein structure prediction and the crystallographic phase problem, Nature, 450 (7167), 359-64
Bradley P, Baker D (2006) Improved Beta-Protein Structure Prediction by Multi-level Optimization of Non-Local Strand Pairings and Local Backbone Conformation, Proteins: Structure, Function, and Genetics, 65 (4), 922-9
Bradley P, Misura KMS, Baker D (2005) Toward High-Resolution De Novo Structure Prediction for Small Proteins, Science, 309, 1868-71