Thanks Thomas, I will try this.
Jerome
On 26 April 2012 11:16, Thomas Evangelidis tevang3@gmail.com wrote: > Possibly by defining different chain IDs. To do that use the chain brake > character "/" in your alignment and , for example, instead of writing this: > > class MyLoopModel(dopehr_loopmodel): > # This routine picks the residues to be refined by loop modeling > def select_loop_atoms(self): > return selection(self.residue_range('330:', '336:')) > > write this: > > class MyLoopModel(dopehr_loopmodel): > # This routine picks the residues to be refined by loop modeling > def select_loop_atoms(self): > return selection(self.residue_range('330:A', '336:A'), > self.residue_range('221:B', 22'8:B')) > > > HTH, > Thomas > > > > > On 25 April 2012 22:16, Jérôme Hénin jhenin@imm.cnrs.fr wrote: >> >> Hi everyone, >> >> I am trying to do loop refinement on a multi-chain protein. My problem >> is that Modeller tries to anchor C-ter loops to the N-ter of the next >> chain, yielding unrealistic starting configurations, and making the >> whole refinement fail. >> >> How can I instruct Modeller that the C-ter and the following N-ter >> "loops" are to be modeled separately? >> >> Thanks, >> Jerome >> _______________________________________________ >> modeller_usage mailing list >> modeller_usage@salilab.org >> https://salilab.org/mailman/listinfo/modeller_usage > > > > > -- > > ====================================================================== > > Thomas Evangelidis > > PhD student > > Biomedical Research Foundation, Academy of Athens > > 4 Soranou Ephessiou , 115 27 Athens, Greece > > email: tevang@bioacademy.gr > > tevang3@gmail.com > > > website: https://sites.google.com/site/thomasevangelidishomepage/ > > > > > _______________________________________________ > modeller_usage mailing list > modeller_usage@salilab.org > https://salilab.org/mailman/listinfo/modeller_usage >