How to rectify the non bonded atom error in auto dock ?

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Rezvan Marjani

Hello,

just ignore it .

Omkar R. Mali

Simply ingnoring it is not a solution. First note down those all non-bonded atom. Then restart your docking process. After removing water, ligand and hatom from selecting in string in left side in listed protein chain check that detected non-bonded atom & and select them. Then non-bonded atom presenting chain you have to select. Delete this selection. Now you good to go.