From: Pavel Afonine <[email protected]> Sent: Wednesday, April 8, 2020 5:31 PM To: Coudray, Nicolas; [email protected] Subject: Re: [phenixbb] refinement of EM models with hydrogens using phenix.real_space_refine
[EXTERNAL]
Hi Nicolas,
We had a question regarding how the
phenix.real_space_refine works when used to refine CryoEM models with hydrogens: are hydrogens treated as riding or are they explicitly refined?
yes, they are riding (although the way real-space refinement work in phenix.real_space_refine it doesn't matter!).
Also, they are not included into map target function calculation.