Re: [PyMOL] density map

2007-12-07 Thread Tsjerk Wassenaar
Hi Steve, You'll need to provide more information if you want to have a chance on a helpful thought. Maybe you could link the .pdb file and the .xplor map and show what O does to it. Cheers, Tsjerk On Dec 7, 2007 3:57 PM, W.M. B. wrote: > Hi, All > > I'm trying to make a picture of active sit

Re: [PyMOL] apbs plugin for macpymol

2007-12-07 Thread Andreas Förster
Thanks to Michael and Warren for a quick and correct but somewhat baffling solution. In OSX, one renames an application and it starts up looking quite dissimilar from before. I'm still new to the Gospel according to Steve, and I wouldn't mind enlightenment. In any case, using MacPyMOL as PyM

[PyMOL] density map

2007-12-07 Thread W.M. B.
Hi, All I'm trying to make a picture of active site with density map. When I loaded the pdb and xplor map, I found that map and model are in the diffrent position. But in O, they are fine. Would anyone give me a hint how to fix it. Thanks Steve

[PyMOL] Fit sequence to structure with pymol

2007-12-07 Thread DimitryASuplatov
Hello everybody. Does anybody know how to perform sequence to structure fit with pymol? For example this feature in swiss-pdb-viewer is called "Fit" or "Magic fit". So, 1/ Is there a command to fit sequence to pdb& 2/ If yes, could I specify the region to fit on? Thanks!

Re: [PyMOL] apbs plugin for macpymol

2007-12-07 Thread Michael Lerner
> I would like to use apbs from within PyMOL. I have downloaded and > installed the latest version of apbs, and apbs_tools.py exists in > $PYMOL_PATH/modules/pmg_tk/startup/. However, I find no "plugins" entry > in any of the PyMOL menus. I think that you need to rename the application bundle to

[PyMOL] apbs plugin for macpymol

2007-12-07 Thread Andreas Förster
Hey all, I would like to use apbs from within PyMOL. I have downloaded and installed the latest version of apbs, and apbs_tools.py exists in $PYMOL_PATH/modules/pmg_tk/startup/. However, I find no "plugins" entry in any of the PyMOL menus. Am I blind or daft? But the question I'd really l