<div dir="ltr"><div>Hi Stephen,</div><div class="gmail_quote"><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">(1) Is it possible to add RNA base-pair restraints into Phenix <br>
Real-space-refinement of a lowish resolution cryoEM structure?<br>
<br>
If so how?<br></blockquote><div>They are turned on by default, so you don't have to do anything. </div><div>They are controlled by "Use secondary structure restraints" flag in GUI or secondary_structure.enabled=True in command-line - the same as for protein secondary structure.</div><div><br></div><div>Best regards,</div><div>Oleg Sobolev.</div><div> </div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<br>
(2) We are also lucky enough to have some impressively high resolution <br>
cryoEM maps (2.4 A average) which show among other things hundreds of <br>
water molecules.<br>
<br>
I was wondering whether Phenix Real-space-refinement was really adapted <br>
to high resolution, e.g. it uses grouped B-factor refinement and has no <br>
water handling options<br>
<br>
(putting them in manually is a pain and you always miss some). How have <br>
other people dealt with these issues ?<br>
<br>
thanks for any help<br>
<br>
<br>
Stephen Cusack<br>
<br>
-- <br>
<br>
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Dr. Stephen Cusack, FRS<br>
Head of EMBL Grenoble<br>
Group leader in the structural biology of protein-RNA complexes and viral proteins<br>
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Email: <a href="mailto:cusack@embl.fr" target="_blank">cusack@embl.fr</a>, <a href="mailto:stephen.cusack@embl.org" target="_blank">stephen.cusack@embl.org</a> <br>
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