[ccp4bb] using pymol for making movie of change in protein structure

Dear All, My query is slightly out of scope of ccp4. I need some suggestions for making movie using pymol to show conformation of a reactive site loop, through the use of three crystal structure which are available showing this change. I have seen many people present the structural information

Re: [ccp4bb] using pymol for making movie of change in protein structure

Dear All, Thanks a lot to all, for replying to my query.and yes Dr. Read, i m trying to make the movie for the first time but hopefully with the help of CCP4bb, i will be able to do the task. Thanks again.Regards -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to

[ccp4bb] Defining beamstop and error during indexing- moslfm

. -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.”

Re: [ccp4bb] Defining beamstop and error during indexing- moslfm

seems like it is not picking a lot of spots, so missing  large number of reflections.So, any suggestions to correct it or am i doing something wrong. Thanks again for the help and suggestions -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever

[ccp4bb] data backup

system which include links to all the projects, input, output and log files. Thanks in advance. Regards -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.”

Re: [ccp4bb] data backup

Dear Jon, Thanks for the help. I hope taking complete backup of the ccp4 directories and installing ccp4 again will provide the same interface as it is now. Thanks and Regards -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” --- On Fri, 11/5/12

Re: [ccp4bb] Dose anyone see this ligand before?

hi Wei, This looks like MPD, 2-Methyl-2,4-pentanediol. May b u have added it as ur cryo-protectant. Thanks and Regards   -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” From: sonali dhindwal To: "

[ccp4bb] help regarding structure solution

Dear All, I am working on a protein for last so many years and for which i have got crystal now in a tray which i kept 1 years ago. It diffracts well and resolution is 2.2A, which is good.  I indexed in HKL2000, mosflm and automar and it shows P21 space group in all data reduction packages. But

Re: [ccp4bb] help regarding structure solution

trying all the things as suggested. Regards -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” --- On Thu, 21/6/12, Peter Hsu wrote: From: Peter Hsu Subject: Re: [ccp4bb] help regarding structure solution To: CCP4BB@JISCMAIL.AC.UK Date: Thursday

Re: [ccp4bb] help regarding structure solution

Dear Raaij, We have not done mass-spec on the band from SDS-PAGE to confirm if it is our desired protein or any other contaminant. So, cant say for sure. Regards -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” --- On Thu, 21/6/12, Mark J van

Re: [ccp4bb] help regarding structure solution - high R values after MR

Dear All, Thanks a lot for all the suggestions and help. Dear Eleanor, I will check the mtz file as u mentioned for the spacegroup and Dear Pye, Thanks for the link, i will run it and will let you knw if i find any luck. Thanks again, Regards -- Sonali Dhindwal “Live as if you were to die

[ccp4bb] Query regarding the use of anisotropic temperature factor and ideal rmsAngle and rmsBond length values

suggestions will be highly valuable. Thanks in advance. -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.”

Re: [ccp4bb] Query regarding the use of anisotropic temperature factor and ideal rmsAngle and rmsBond length values

Dear All, I want to thank all for your helpful and quick suggestions and insight. It was a very good discussion and also helped in understanding the topic. Thanks again. -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” --- On Mon, 18/3/13, Ian

[ccp4bb] Poor electron density in some of the chains in an asymmetric unit

density in all the chains. What could be the possible reason for these three chains which are not refining properly. Any suggestions will be very useful. Thanks and Regards -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.”

Re: [ccp4bb] Poor electron density in some of the chains in an asymmetric unit

side chains which are otherwise good in other chains. Regards   -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” From: Eleanor Dodson To: CCP4BB@JISCMAIL.AC.UK Sent: Monday, 29 April 2013 4:36 PM Subject: Re

Re: [ccp4bb] Poor electron density in some of the chains in an asymmetric unit

chain and did refinement, all I was getting was the small small broken electron density everywhere in that chain region. Thanks again.   -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” From: Francis E. Reyes To

Re: [ccp4bb] Poor electron density in some of the chains in an asymmetric unit

Dear All, Thanks for the reply. I will try process and refine the data again, will see if it improves. Thanks again to all.   -- Sonali Dhindwal “Live as if you were to die tomorrow. Learn as if you were to live forever.” From: Mark van Raaij To