[ccp4bb] UTP binding site and druggability

2010-03-03 Thread Eric Liu
Hi All, I have a question regarding developing inhibitor for UTP binding protein. Since UTP is a common nucleotide substrate for a lot of glycoenzymes similiar to ATP for kinases, developing potent inhibitor for UTP in vitro may not seem to be an impossible task, or at least it's technically feas

[ccp4bb] elbow and compound library

2009-03-03 Thread Eric Liu
Hi All, I downloaded a stausporine PDB file and used elbow to generate the cif file for my ccp4 refinement. It gave the following error message: 0:00 Bondise Bondise Bondise Bondise Bondise Bondise Bondise Bondise Bondise B Failed to determine the bonding of a fragment of the molecule.

[ccp4bb] song CRT Multiscan E540 monitor for stereo view

2009-02-04 Thread Eric Liu
Hi All, I would like to explore if anybody had experience using song CRT multiscan E540 monitor for stereo view? I connected the monitor to our linux machine (Red Hat Enterprise 5.0). When I launch coot, I don't see a stereo view of the structure. Do I need to do some kind of configuration in orde

Re: [ccp4bb] error message on installation of ccp4i on linux red hat enterprise 5.0

2009-02-02 Thread Eric Liu
The problem was fixed. I changed the original RgbPath in /etc/X11/xorg.conf from "/usr/X11R6/lib/X11/rgb" to "/usr/share/X11/rgb". I can now run ccp4i. Thanks everyone for pointing it out. Eric On Mon, Feb 2, 2009 at 4:43 PM, Tru Huynh wrote: > On Mon, Feb 02, 2009 at

[ccp4bb] error message on installation of ccp4i on linux red hat enterprise 5.0

2009-02-02 Thread Eric Liu
Hi All, I just downloaded and installed ccp4 in my home directory. The installation went quite smoothly. For individual ccp4 programs, it seems working ok. however, when I type ccp4i, it gave a bunch error message. here are the error message: Top level CCP4 directory is /home/X/programs/ccp4-6

[ccp4bb] install ccp4 in OS X

2008-12-19 Thread Eric Liu
Hi All I am a new user for OS X system and this question may sound naive. I followed the instruction on website Crystallography on OS X, installed X11, Xcode and fink on my OS X 10.5.5, but still could not install ccp4 with fink. Here is the err message" no package found for specification "ccp4""

Re: [ccp4bb] how to bring back the missing density for half of the structure

2007-08-01 Thread Eric Liu
/07, Eric Liu <[EMAIL PROTECTED]> wrote: > > Hi All, > I would like to get some help from here for a data set I recently worked > on. I have been working on a new kinase data set which does not have a close > homolog. The data was collected to 2.1A resolution in space group

Re: [ccp4bb] how to bring back the missing density for half of the structure

2007-07-31 Thread Eric Liu
Dear All, Thanks so much for all of you who spent time answering my questions. These are all really great suggestions. I'll follow up with your suggestions and see how it works out with my case. Thanks again, Eric On 7/31/07, Eric Liu <[EMAIL PROTECTED]> wrote: > > Hi All,

[ccp4bb] how to bring back the missing density for half of the structure

2007-07-31 Thread Eric Liu
Hi All, I would like to get some help from here for a data set I recently worked on. I have been working on a new kinase data set which does not have a close homolog. The data was collected to 2.1A resolution in space group P212121 however the difference between a and b is only 0.5A. If I index th