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All hydrogens or only non-polar hydrogen?
Title
Question
Could you please tell me, in the YouTube tutorials on using AutoDock4 in the protein preparation step, they recommend adding all the hydrogen first, then combining the non-polar hydrogen. In what situations do we leave all added hydrogen in the system and when do we use only polar hydrogen? 


AutoDock4 Receptor-Preparation-for-Docking 03-04 min 10-20 sec 09-08-24, 3:32 p.m. Ivajull

Answers:

Please follow the method as shown in the "Getting started for Docking" tutorial for the example
09-08-24, 3:45 p.m. snehalathak

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 In the tutorial all hydrogens are added first.
09-08-24, 3:54 p.m. snehalathak

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