Hi Warren,
I spotted this a while ago but thought I was just doing it wrong....
On my system, RHL8.0 with with commercial xig.com summit Xserver for
hardware stereo,
when I try to do what is described below,
in 3 button editing,
ctrl middle click on an atom,
no white sphere appears on the atom
so I cant move that molecule.
The three buttons on my logitech ps2 scroll wheel mouse work fine on
their own
for rotate, zoom and translate, but don't seem to work with modifier
keys in pymol.......
shift left click works in another application, MayaVi (uses tkinter)
any ideas?
Dan
On Monday, November 3, 2003, at 06:15 AM,
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Today's Topics:
1. RE: a couple of newbie questions (Warren L. DeLano)
--__--__--
Message: 1
From: "Warren L. DeLano" <war...@delanoscientific.com>
To: "'Andrew Fant'" <andrew.f...@tufts.edu>,
<PyMOL-users@lists.sourceforge.net>
Subject: RE: [PyMOL] a couple of newbie questions
Date: Sat, 1 Nov 2003 20:33:20 -0800
Hello all.
I am relatively new to pymol, so please excuse me if
these questions
are too simple for the list as a whole. I am running 0.90 on a Linux
system by way of introduction.
1) What is the easiest way to select one molecule out of
several on the
screen and translate it independently from everything else? I try
selecting it. but moving the mouse while holding the mov button still
translates everything.
Select "3 Button Editing Mode" from the mouse menu (or click on the
mouse matrix, or simply type "edit_mode").
Ctrl-middle click on one atom in the molecule you wish to translate. A
white ball should appear on that atom. Then shift-middle-click on that
same atom to translate the molecule, or shift-left-click to rotate it.
(If you click on other atoms in the molecule, only that fragment,
relative to the ball will be translated)
When done, click the Unpick button, or type "unpick", or ctrl-middle
click away from any atoms to clear the picked selection.
2) Is there an easy way to superimpose many molecules
independently? I
know that I can do individual pairwise alignments, but that
seems like a
good way to let more errors creep into the process.
Not really. "fit" and "align" give you pairwise alignments -- there
isn't any multiple-sequence-alignment capability in PyMOL yet.
3) Is there an automated way to take HET groups in a
structure read from a
PDB file and make independent molecules out of them?
The following commands will move the heteroatoms into a separate
object:
create hetobj, hetatm
remove hetatm and not hetobj
Cheers,
Warren
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