Dear Tarique -- On 2 Sep 2008, at 12:58, Tarique wrote:
Can any body tell me how to build peptide fragment of 5-6 residues using coot,if the sequence is known.I am working at 2.1 angstroms resolution map.
If the peptide you're trying to build is a loop, and the density is visible, you can use the Fit Loop option, straight forward to understand. Now, if you're trying to build a peptide not related to your protein, e.g. a ligand, I would start by importing a single alanine.pdb file that would contain the coordinates for an alanine, place the alanine in the density you can see, and start to build from it. You can still mutate with the proper amino acids later on. Please note that I'm still working on an hold version of Coot, without any fancy additional options :)
HTH Kind regards. -- Leo -- ------------------------------------------------------------ Chavas Leonard, Ph.D. @ home Research Associate Marie Curie Actions Fellow ------------------------------------------------------------ Faculty of Life Sciences The University of Manchester The Michael Smith Building Oxford Road Manchester Lancashire M13 9PT ------------------------------------------------------------ Tel: +44(0)161-275-1586 e-mail: [EMAIL PROTECTED] http://personalpages.manchester.ac.uk/staff/leonard.chavas/
