Re: [ccp4bb] Server or software for B factor analysis

2012-02-23 Thread Gerard DVD Kleywegt
MOLEMAN2 is your friend. Stats: http://xray.bmc.uu.se/usf/moleman2_man.html#S50 Plots: http://xray.bmc.uu.se/usf/moleman2_man.html#S57 --dvd Will you please tell me a server of software which can draw a curve for the B factor of the atoms in a protein PDB file from the first residue to the

[ccp4bb] Molrep - Fortran runtime errors

2012-02-23 Thread Jason Porta
When using a multi-copy search/fitting two models in Molrep, I encounter a fortran runtime error. This happens at the stage where the second model is being read in. I see that there are some previous posts concerning this. I did try using a different version (as previous posters reported

[ccp4bb] stereo

2012-02-23 Thread Hena Dutta
Hello, Is anyone using nvidia quadro 4000 graphics card for linux environment to see stereo in pymol, coot, O or similar programs? If yes, I like to buy that. Thanks... Hena

[ccp4bb] LCP Tools Technologies Workshop, August 2nd, 2012, Boston, MA

2012-02-23 Thread Vadim Cherezov
The Joint Center for Innovative Membrane Protein Technologies (JCIMPT), operated at The Scripps Research Institute (TSRI) and funded by the NIH Common Fund's Structural Biology program, is teaming up with Formulatrix to host a workshop on Lipidic Cubic Phase (LCP) Tools Technologies following

Re: [ccp4bb] stereo

2012-02-23 Thread David Schuller
On 02/23/12 14:16, Hena Dutta wrote: Hello, Is anyone using nvidia quadro 4000 graphics card for linux environment to see stereo in pymol, coot, O or similar programs? If yes, I like to buy that. Thanks... Hena Yes, we have a Quadro 4000. It seems to work on both Fedora 15 and Scientific

[ccp4bb] Problem running imosflm

2012-02-23 Thread David Schuller
I installed CCP4 6.2.0 on Scientific Linux 6.1 (x86_64) on Feb 9, including the versions of tcl tk offered by CCP4. When I try to run imosflm, I get the following: MOSFLM_EXEC set to /usr/local/xtal/ccp4_master/ccp4-6.2.0/bin/ipmosflm testing MOSFLM_WISH

[ccp4bb] molrep question - how get our ducks in a row?

2012-02-23 Thread Gloria Borgstahl
Hello all, We are solving a superstructure of a protein complex with 2 parts. Built 6 of the first part and they are all sensibly stacked next to each other. Then we read this into molrep as the fixed model and solved for the second part. The solution was found but the 6 for the second model are

[ccp4bb] Postdoc position

2012-02-23 Thread Guan, Lan
There is an immediate opening for a Post Doctoral Research Associate in the group of Dr. Lan Guan, Department of Cell Physiology and Molecular Biophysics at Texas Tech University Health Science Center, Lubbock, TX, focuses on the structure determination of a sugar transport protein by 3-D X-ray

Re: [ccp4bb] Aggregated protein for crystallization

2012-02-23 Thread Ho Leung Ng
I should have been more clear. If your protein is insoluble aggregate, you can use crystal screen results to get an idea of what buffer conditions favor solubility (and hopefully monodispersity). An example is described nicely in Collins et al, Acta Cryst F 61:1035. Ho Ho Leung Ng University of

Re: [ccp4bb] molrep question - how get our ducks in a row?

2012-02-23 Thread David Shin
Hi Gloria, It depends on if you mean hard as in thinking up a slick trick, or hard as in maybe 20-30 mins of tedious work. I had the same problem with 18 in the ASM, where the solution had scattered models, but didn't want to think about it, so just used pymol. 1) open the first model with the

Re: [ccp4bb] molrep question - how get our ducks in a row?

2012-02-23 Thread Johan Turkenburg
Hi, There is an option in the molrep interface (in the search parameters tab) to output all models closest to the input coordinate file With a bit of luck, that should do it. Johan On 24 February 2012 00:07, Gloria Borgstahl gborgst...@gmail.com wrote: Hello all, We are solving a