You can do this quickly in Coot: Calculate>Scripting>Scheme And a scripting window opens. See the Coot user manual (1) for detailed scheme instructions, but the command now is in the form: (print-sequence imol) "imol" comes from the number shown in the display manager to the left of the model name. e.g.: (print-sequence 0) ...for imol 0. The sequences of each chain are output to the terminal.
If you have only python support in Coot: Calculate>Scripting>Python print_sequence(0) is the pythonized version of the command for imol 0. (1) http://www.ysbl.york.ac.uk/~emsley/coot/doc/user-manual.html#SEC79 2008/10/1 Jane Bailey <[EMAIL PROTECTED]> > > Hi, all > > I am currently rebuilting my structure in coot, and the protein sequence is > around 98% rebuilt yet. I am looking for a way to extract protein sequence > from the rebuilt.pdb so that I could see clearly which part need to be > rebuilt by sequence alignment. Any ideas about this? thanks > > Best > Jane -- Mark BROOKS Telephone: 0169157968 Fax: 0169853715 Institut de Biochmie et de Biophysique Moleculaire et Cellulaire UMR8619 - Bât 430 - Université de Paris-Sud 91405 Orsay CEDEX Skype: markabrooks
