[ccp4bb] Classification of Ig-like domains

2014-10-09 Thread Thomas Krey
Dear all, I was wondering, if there is a tool out there that allows the easy classification of immunoglobulin and Ig-like domain subclasses based on a given pdb file. As far as I am aware the state-of-the-art for immunoglobulin domains is to determine the distance (in amino acids) between the

[ccp4bb] Cryo

2014-10-09 Thread vitul jain
Hello everybody, can anyone please suggest a good Cryo for condition having 0.8 M Lithium sulphate and 0.1 M Sodium acetate 4.6. Thanks in advance Vitul -- Vitul Jain PhD student C/O Dr. Amit Sharma Structural and Computational Biology lab International Center for Genetic Engineering and

Re: [ccp4bb] Cryo

2014-10-09 Thread Nicolas Soler
Hi Vitul, Having a final concentration of 2M for lithium sulphate worked for me (from a 2.5M stock solution). Nicolas On 09/10/2014 10:27, vitul jain wrote: Hello everybody, can anyone please suggest a good Cryo for condition having 0.8 M Lithium sulphate and 0.1 M Sodium acetate 4.6.

Re: [ccp4bb] Cryo

2014-10-09 Thread Enrico Stura
Vitul, 0.8 M Lithium sulphate is not excessively high salt (a 2X precipitant is possible) You have many options available: 2M for lithium sulphate is one of them see: http://pubs.acs.org/doi/full/10.1021/cg301531f for various combinations of mixed cryoprotectants. Enrico. .On Thu, 09

[ccp4bb] Research Fellow Position - Structural Immunology of the B Cell

2014-10-09 Thread Jean-Philippe Julien
Job description Dr. Julien's laboratory at The Hospital for Sick Children Research Institute in Toronto, Canada is looking for a Research Fellow to join our Structural Biology team. The successful candidate will participate in the characterization of B cell glycoprotein receptors by using a

Re: [ccp4bb] Classification of Ig-like domains

2014-10-09 Thread Eleanor Dodson
what about overlapping an ig domain with that disulphide in place with yours? then measuring the homologues cysteine separation? validity depends how close a match you get i suppose.. On 9 October 2014 08:42, Thomas Krey tk...@pasteur.fr wrote: Dear all, I was wondering, if there is a tool

[ccp4bb] XDS.INP for X25

2014-10-09 Thread Patrick Loll
Hi, I'm trying to help a colleague process some data collected at beamline X25 of the late, lamented NSLS. Does anyone have an XDS.INP file that they know works for such data (this is for the Pilatus detector)? I have kludged together a file that looks right, but the processing still doesn't

[ccp4bb] Beamtime @ SLS

2014-10-09 Thread Meitian Wang
=== SYNCHROTRON BEAM TIME FOR MACROMOLECULAR CRYSTALLOGRAPHY AT SLS === Proposal application deadline: Wednesday, October 15, 2014 Periods: January 1, 2015 -

Re: [ccp4bb] Postdoctoral position in Philadelphia

2014-10-09 Thread Emmanuel Skordalakes
Postdoctoral Position in Structural Biology, Biochemistry or a related filed A post-doctoral position is immediately available in the Skordalakes laboratory at The Wistar Institute/UPENN to study protein Nucleic acid assemblies that participate in the replication and maintenance of telomeres. We

Re: [ccp4bb] XDS.INP for X25

2014-10-09 Thread Jurgen Bosch
This helps: http://strucbio.biologie.uni-konstanz.de/xdswiki/index.php/XDSGUI But you also have my script off list :-) Jürgen .. Jürgen Bosch Johns Hopkins University Bloomberg School of Public Health Department of Biochemistry Molecular Biology Johns Hopkins Malaria

Re: [ccp4bb] coot: protein sequence number too large to be displayed

2014-10-09 Thread Tim Gruene
Dear Yong, one work-around is to renumber the residues, e.g. with Coot itself or with pdbset. This, however, would break the reasonable custom that residue number should match the biological sequence number, so don't forget to rerenumber upon deposition. Regards, Tim On 10/09/2014 08:36 PM,