Re: [phenixbb] refinement of EM models with hydrogens using phenix.real_space_refine

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. Pavel