Re: [ccp4bb] coot and probe clash

2010-02-09 Thread Yamei Yu
Thanks! I download the executable probe and reduce and add them to .coot. Now it works well. Thank you very much! 2010/2/8 William G. Scott > On Feb 8, 2010, at 2:07 PM, Nathaniel Echols wrote: > > > On Mon, Feb 8, 2010 at 1:51 PM, William G. Scott < > wgsc...@chemistry.ucsc.edu > >> wrote: > >

Re: [ccp4bb] HIV-Protease movies

2010-02-09 Thread Ian Tickle
Xavier, can't help you with the HIV protease movie, but most movies (all of the HIV protease movies that I tried anyway!) can be downloaded from YouTube with this Firefox add-on: http://www.downloadhelper.net HTH! Cheers -- Ian > -Original Message- > From: owner-ccp...@jiscmail.ac.uk

Re: [ccp4bb] Coot- Find water

2010-02-09 Thread Yong Y Wang
Paul, It seems the distance criteria apply to protein atoms only, not including bound water. Is there a way to include atoms from water molecules in the distance constraint? Yong Paul Emsley Sent by: CCP4 bulletin board 02/01/2010 09:02 AM Please respond to Paul Emsley To CCP4BB@JISC

[ccp4bb] Postdoctoral position avaliable

2010-02-09 Thread Marzena Pazgier
A postdoctoral position is available immediately for a highly motivated candidate at the University of Maryland, School of Medicine and the Institute of Human Virology, in Baltimore, Maryland. Successful candidate will join an ongoing research project focused on structural characterization of b

Re: [ccp4bb] Alternatives to ChemDraw 3D

2010-02-09 Thread Sean Seaver
> You can build any 3D molecule easily in Discovery Studio Visualizer - It is free but > not for Mac OS I have been pretty impressed with Discovery Studio Visualizer and feel that it can serve as a nice compliment to Pymol. I wrote up a brief overview and comparison between the two programs her

Re: [ccp4bb] Alternatives to ChemDraw 3D?

2010-02-09 Thread William G. Scott
On Feb 7, 2010, at 11:13 PM, Wataru Kagawa wrote: > Hi all, > > I would like to create a pdb file for a chemical compound (FW ~600) that was > created in our chemistry department. ChemDraw 3D appears capable of doing > this, but I would like to know if there are free alternatives that work grea

[ccp4bb] slow coot in mac 10.6

2010-02-09 Thread rui
Hi, Dear All, I have a mac 10.4 with 4GB memory, I thought it should be pretty fast. However when I run coot, it's kind of slow. Even when I push the space key to go to next residue, I can feel it is really walking to the next residue. Is this normal or something maybe not set up correct? I wonde

[ccp4bb] Off topic: Monitoring kinetics of multiple enzymes in living cell / lyset

2010-02-09 Thread Partha Chakrabarti
Dear all, Apologies for a off topic question. I could not think of a better place to ask this. Suppose, we have four enzymes turning over five molecules, either in the living cell, or in fresh mammalian cell lyset. The molecules could be as simple as ATP, GTP, NADP, GSH etc. Now, one can add a in