Hi Luke,<br>How big is your loop. I normally try to built it one molecule at a time from both ends of the loop in COOT, refine and re-try loop building. Some times, if the electron density is ok you can build the whole loop one amino-acid at a time by iterative COOT, refinement and loop building.<br>
Ivan<br><br><div class="gmail_quote">On Fri, Dec 10, 2010 at 11:40 AM, Luke Rice <span dir="ltr"><<a href="mailto:luke.rice@utsouthwestern.edu">luke.rice@utsouthwestern.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
Hi All,<br>
<br>
I am trying to see if I can save myself some time by using the loop fitting tools in Phenix. I think I am stalling out because of a trivial problem, but cursory googling, etc, has not helped. Sorry if I should have tried harder. I appreciate any help.<br>
<br>
I am using the gui, dev-601. My fasta sequence gets read fine because the output reports the sequence of the missing residues. Whether I use the loop library or not, I get the following error:<br>
<br>
Unable to find suitable gap to fill<br>
<br>
Then it appears to try to build the loop using sequence from a different chain (I have three chains in my structure).<br>
<br>
What am I doing wrong?<br>
<br>
Luke<br>
<br>
<br>
-- <br>
Luke M. Rice<br>
Assistant Professor and<br>
Thomas O. Hicks Scholar in Medical Research<br>
Department of Biochemistry, ND10.300<br>
UT Southwestern Medical Center<br>
5323 Harry Hines Blvd.<br>
Dallas, TX 75390-8816<br>
phone: (214) 645-5931<br>
email: Luke.Rice@UTSouthwestern.edu<br>
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</blockquote></div><br>