<html><head></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><span class="Apple-style-span" style="border-collapse: collapse; color: rgb(34, 34, 34); font-family: arial, sans-serif; font-size: 13px; ">Hi All,<div><br></div><div>I was wondering whether anybody has successfully run the DEN refinement under phenix yet. I am having some problems with my scripts stalling without any error messages. </div><div><br></div><div>What sort of reference models do people use? The following issues I am not quite clear on:</div><div><br></div><div>- if I don't have a reference model should I call on my current pdb where the script calls for a reference model?</div><div><br></div><div>- is it ok to use a single domain as a reference model or is it not enough to get the whole protein refined?</div><div><br></div><div>- is it possible to use more than one reference model; in a case where I had structures of each domain solved separately?</div><div><br></div><div>- can a reference model be a different protein or does it have to have the same sequence? </div><div><br></div><div>Thanks a lot!</div><div class="yj6qo ajU" style="cursor: pointer; outline-style: none; outline-width: initial; outline-color: initial; padding-top: 10px; padding-right: 0px; padding-bottom: 10px; padding-left: 0px; width: 22px; margin-top: 2px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><div id=":2m" class="ajR" role="button" tabindex="0" aria-label="Show trimmed content" data-tooltip="Show trimmed content" style="background-color: rgb(241, 241, 241); border-top-width: 1px; border-right-width: 1px; border-bottom-width: 1px; border-left-width: 1px; border-top-style: solid; border-right-style: solid; border-bottom-style: solid; border-left-style: solid; border-top-color: rgb(221, 221, 221); border-right-color: rgb(221, 221, 221); border-bottom-color: rgb(221, 221, 221); border-left-color: rgb(221, 221, 221); clear: both; line-height: 6px; outline-style: none; outline-width: initial; outline-color: initial; position: relative; width: 20px; "><img class="ajT" style="background-image: url(https://ssl.gstatic.com/ui/v1/icons/mail/ellipsis.png); background-attachment: initial; background-origin: initial; background-clip: initial; background-color: initial; height: 8px; opacity: 0.3; width: 20px; background-position: initial initial; background-repeat: no-repeat no-repeat; " id="9de6ba41-cd2a-4f76-b141-aa9a707730c5" height="1" width="1" apple-width="yes" apple-height="yes" src="cid:F2011F42-930E-4598-B99C-958F95A71B1E"></div></div></span></body></html>