There are different online Docking Servers. I wonder if which one is the most reliable for both protein-protein and protein-ligand docking?

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Shirin Fathi

Dear Farzaneh,

I used Haddock server (https://wenmr.science.uu.nl/) to perform protein protein docking and compare it to other web tools it provided me with the least RMSDs.

best!

Tushar Chakraborty

Haddock, Patchdock, Zdock, ClusPro are all reliable online tools for docking.

Sium Ahmed

Swissdock for protein ligand docking and Zdock for protein protein docking. They are reliable.

Roger Davis

Protein-protein docking: ZDOCK, QASDOM, PatchDock

Protein-ligand docking: SwissDock, CB-Dock, MtiOpenScreen

The ZDOCK program (http://zdock.umassmed.edu/) is mainly used to search for all possible binding patterns obtained by translation and rotation between two proteins, and evaluate each binding pattern using an energy-based scoring function model.

SwissDock (http://www.swissdock.ch/) is a free online molecular docking tool used for simulating protein-small molecule interactions.