Selected Publications

B. Borgo and J. J. Havranek "Motif-directed redesign of enzyme specificity", Prot. Sci. 2014; 23(3): 312-320.

S. Lyskov, et. al. "Serverification of Molecular Modeling Applications: the Rosetta Online Server that Includes Everyone (ROSIE)", PLOS One 2013; 8(5):e63906.

B. Borgo and J.J. Havranek "Automated selection of stabilizing mutations in designed and natural proteins" Proc. Natl. Acad. Sci. USA, 2012; 109(5):1494-9.

J.J. Havranek "Specificity in Computational Protein Design" J. Biol. Chem. 2010; 285(41): 31095-31099.

J.J. Havranek and D. Baker "Motif-directed flexible backbone design of functional interactions" Prot. Sci. 2009; 18(6): 1293-1305.

J.A. Ashworth, J.J. Havranek, C.M. Duarte, D. Sussman, R.J. Monnat, B.L. Stoddard, D. Baker "Computational redesign of endonuclease DNA binding and cleavage specificity" Nature 2009; 441(7093): 656-659.

A.V. Morozov, J.J. Havranek, D. Baker, E.D. Siggia "Protein-DNA binding specificity predictions with structural models" Nuc. Acids Res. 2005; 33(18): 5781-5798.

J.J. Havranek, C.M. Duarte, and D. Baker "A Simple Physical Model for the Prediction and Design of Protein-DNA Interactions" J. Mol. Biol. 2004; 344(1): 59-70.

J.J. Havranek, P.B. Harbury "Automated Design of Specificity in Molecular Recognition" Nature Struct. Biol. 2003; 10(1): 45-52.

J.J. Havranek, P.B. Harbury "Tanford-Kirkwood Electrostatics for Protein Modeling" Proc. Natl. Acad. Sci. 1999; 96(20): 11145-11150.