docking using Kyte-Doolittle-based water preferences
P. Kastritis, K. Visscher, A. V. van Dijk et al.
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–DNA docking using HADDOCK: it is a matter of flexibility
This study extends HADDOCK to deal with DNA flexibility and is able to successfully predict protein (cid:1) DNA complexes from unbound constituents using non-structural experimental data to drive the docking.
M. V. van Dijk, A. V. van Dijk, Victor Hsu et al.
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Does Surface Conservation Yield? Application to Data-Driven Docking
The interface prediction program WHISCY is presented, which combines surface conservation and structural information to predict protein–protein interfaces and demonstrates the potential of using interface predictions to drive protein–protein docking.
S. D. de Vries, A. V. van Dijk, A. M. J. J. Bonvin
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