SwarmDock: a server for flexible protein-protein docking.
Protein-protein interactions are central to almost all biological functions, and the atomic details of such interactions can yield insights into the mechanisms that underlie these functions. We present a web server that wraps and extends the SwarmDock flexible protein-protein docking algorithm. After uploading PDB files of the binding partners, the server generates low energy conformations and returns a ranked list of clustered docking poses and their corresponding structures. The user can perform full global docking, or focus on particular residues that are implicated in binding. The server is validated in the CAPRI blind docking experiment, against the most current docking benchmark, and against the ClusPro docking server, the highest performing server currently available.
Biomolecular Modelling Laboratory, Cancer Research UK London Research Institute, London WC2A 3LY, UK.
Mieczyslaw
M
Torchala
Iain H
IH
Moal
Raphael A G
RA
Chaleil
Juan
J
Fernandez-Recio
Paul A
PA
Bates
D000465:Algorithms; D016000:Cluster Analysis; D020407:Internet; D062105:Molecular Docking Simulation / Q000379:methods*; D046912:Multiprotein Complexes / Q000737:chemistry*; D011487:Protein Conformation; D025941:Protein Interaction Mapping / Q000379:methods*; D012984:Software
D046912:Multiprotein Complexes