RosettaDock is distributed as part of the Rosetta Protein Structure Prediction and Design Suite. Rosetta is available from the RosettaCommons.

1. Chaudhury, S. & Gray, J. J. “Conformer selection and induced fit in flexible backbone protein-protein docking using computational and NMR ensembles,” J. Mol. Biol. 381(4), 1068-1087 (2008). Online | PDF

2. S. Chaudhury,* A. Sircar,* A. Sivasubramanian, M. Berrondo & J. J. Gray, "Incorporating biochemical information and backbone flexibility in RosettaDock for CAPRI rounds 6-12," Proteins 69(4), 793-800 (2007). Online | PDF (*These authors contributed equally to this work.)
3. M.D. Daily, D. Masica, A. Sivasubramanian, S. Somarouthu, and J.J. Gray, "CAPRI rounds 3-5 reveal promising successes and future challenges for RosettaDock," Proteins 60(2), 181-186 (2005). Online | PDF
4. Gray, J.J., S.E. Moughan, T. Kortemme, O. Schueler-Furman, K.M.S. Misura, A.V. Morozov, D. Baker, "Protein-Protein Docking Predictions for the CAPRI Experiment," Proteins 52(1), 118-122 (2003). Online | PDF
5. Gray, J.J., S.E. Moughan, C. Wang, O. Schueler-Furman, B. Kuhlman, C.A. Rohl, D. Baker, "Protein-Protein Docking with Simultaneous Optimization of Rigid-Body Displacement and Side-Chain Conformations," J. Mol. Biol. 331(1), 281-299 (2003). Online | PDF

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