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From: ahmet y. <ahm...@gm...> - 2011-10-14 19:09:51
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Dear users, There are 7 missing residues in xxx.pdb file. xxx.pdb consist of chain a and chain b. In chain b there are only 7 missing residues. chain a is complete. I fitted the complete chain onto the one with missing residues, wrote the new coordinates for the fitted chain and put them in the broken chain using a text editor. I think the chain a and chain b do not fit/overlap As result, in chain b alpha is incomplete (see result image). what should I do? *1.way:* pymol-file-open-protein.pdb PyMOL>create chaina, chain a PyMOL>align chaina and resi 2-230, chain b and resi 2-230 PyMOL>save chaina.pdb, chaina *2.way: *pymol-file-open-protein.pdb PyMOL>create chaina, chain a PyMOL>create chainb, chain b PyMOL>align chaina and resi 2-230, chainb and resi 2-230 PyMOL>save chaina.pdb, chaina Again the result didnt change :( -- Ahmet YILDIRIM |