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Dear List,<BR> <BR>Sorry fo r the easy question, but I have a problem with Autobuild. <BR>
<BR>
I'm trying to rebuild a scFv, composed of two domains linked by a linker. <BR>
<BR>
I've managed to find an MR solution with a polyalanine model deprived of the loops, which is my starting model for rebuilding.<BR>
<BR>
I've given Autobuild three input files: the mtz, the model coordinates and the sequence of the scFv, asking to model only the beta strands and helices.<BR>
<BR>
Problem is that in the final model Autobuild seems to guess incorrectly the density of two beta-strands, inserting the linker there instead of the expected side chains.<BR>
<BR>
Any suggestions on how to correct this? Shall I manually rebuild this part to avoid problems? Or is it crucial to prevent errors, for example, that the model and the sequence are numbered so that they are in register?<BR>
<BR>
Thanks in advance,<BR>
<BR>
Claudia<BR>
<BR> <BR> <BR><BR><BR>Claudia Scotti Dipartimento di Medicina Sperimentale Sezione di Patologia Generale Universita' di Pavia Piazza Botta, 10 27100 Pavia Italia Tel. 0039 0382 986335/8/1 Facs 0039 0382 303673<BR><BR><BR><BR> <br /><hr />Hotmail: Trusted email with powerful SPAM protection. <a href='https://signup.live.com/signup.aspx?id=60969' target='_new'>Sign up now.</a></body>
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