Dear David,
I am unfamiliar with the pymol scripts so I do not understands where your scripts end at each line. Can we write this way, stored.y=[] iterate_state 1, prot, stored.y.append(y) alter prot, b=stored.y.pop(0) which means those from % in your scripts will be not used in each line for pymol reading? Can you introduce a website to introduce the pymol scripts? For stored.y=， following y= is it the file name of file stores y for each coordinates? Can you introduce to me a server or software which can extract y coordinates from the PDB and save it as another file? Can you introduce to me a server of software which can delete the original b-factors in the original PDB and have the ys pasted on the b-factors positions in the PDB file? Smith At 2015-11-18 21:13:05, "David Hall" <li...@cowsandmilk.net> wrote: I forgot: spectrum b at the end. On Wed, Nov 18, 2015 at 8:11 AM, David Hall <li...@cowsandmilk.net> wrote: Assuming you are ok with overwriting the B-factors stored.y=[] iterate_state 1, prot, stored.y.append(y) % prot here should be replaced with your pymol object name alter prot, b=stored.y.pop(0) % again, replace prot with your pymol object name On Wed, Nov 18, 2015 at 7:49 AM, Smith Liu <smith_liu...@163.com> wrote: Dear All, Is any way we can colour the molecule by pymol based on the y values in the z y z coordinates, so that we can view easily the residues (or atoms) with equivalent position in the primary sequence but has a y-axis shift in the 3-D structure? Smith ------------------------------------------------------------------------------ _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
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