Re: [ccp4bb] can truncate import Rfree?

2007-05-03 Thread Ian Tickle
Hi, the distributed version of truncate (from v 6.0 I think) has an option to assign label FreeR_flag on input copy to output, this is an option I added because we needed it here. Unfortunately the relevant info doesn't seem to have made it to the man page, sorry about that. Cheers -- Ian

Re: [ccp4bb] can truncate import Rfree?

2007-05-03 Thread Tim Grune
Hello Ian, that feature also does not seem to having it made into the GUI either. From the truncate code it looks like the corresponding LABIN flag is ''FreeR_flag'. Is this correct? To the others: Thank you for the comments. It's good to know that 'cad' is the program to use, I think,

Re: [ccp4bb] can truncate import Rfree?

2007-05-03 Thread Ian Tickle
Tim, yes that's correct. -- Ian PS It seems to be the case in general that there are many less frequently used, though nonetheless useful, features of programs that are only available by scripting (or of course by editing the script generated by the GUI). Unfortunately it's undoubtedly also the

[ccp4bb] Crystallization associate at Biogen Idec

2007-05-03 Thread Laura Silvian
Company: Biogen Idec Position Title: Protein Crystallizer Location: Cambridge, MA Req. #6984BR Company Profile: Biogen Idec Inc. (NASDAQ: BIIB), a global biotechnology leader with leading products and capabilities in oncology, neurology and immunology, is committed to transforming scientific

[ccp4bb] Structures with disordered polypeptide chain

2007-05-03 Thread Dalibor Milic
Dear all! I would like to find the examples of protein crystal structures with a disordered polypeptide chain (10? or more successive residues in disorder) but which were also modeled and refined as such (e.g. with the occupancies 0.5 for each of the two conformations). Do you know such examples?

[ccp4bb] wwPDB Announcement: Release of Remediated PDB Data

2007-05-03 Thread Cathy Lawson
***wwPDB Announcement: Release of Remediated PDB Data*** The wwPDB has collaborated on a project to remediate the PDB archive and create a new set of corrected files. The entire archive has been reviewed and remediated with the objectives of improving the detailed chemical description

Re: [ccp4bb] image plate shadow

2007-05-03 Thread Edward A. Berry
It definitely could be the pin, assuming that projects in from the opposite side as the beamstop shadow. Although the crystal is a major source of background scatter, and obviously the pin cannot cast a shadow in that light, air scattering is also significant, and the air at the tip of the

Re: [ccp4bb] image plate shadow

2007-05-03 Thread Frank von Delft
Hi Alejandro If it's as high resolution as it seems to be, it's probably from the top of your cryo pin. (You mean the thing on the left of the image?) Of course, this is not in the least a problem: the diffraction spots should be unaffected, it's just that there's less X-ray background in that

Re: [ccp4bb] image plate shadow

2007-05-03 Thread David J. Schuller
On Thu, 2007-05-03 at 19:51 -0300, Alejandro Buschiazzo wrote: Dear ccp4bb users, I have a question that concerns a problem with data collection (not directly related to CCP4). It might be a really stupid mistake I'm making... I'm attaching a diffraction frame where, as you can easily