[ccp4bb] a small trick for SDS-Gel storage

2012-03-20 Thread Kevin Jin
Dear All, Maybe most of you already knew. I just put my understanding of SDS page gel storage here, if you want to make gel yourself and safe some money. http://www.jinkai.org/SDS_page.html If I am wrong, please let me know. Sharing knowledge each other is always joyful. -- Kevin Jin Protein

Re: [ccp4bb] Announcing a Web Server for the Grade ligand restraints generator.

2012-03-20 Thread dusan turk
Dear Gerard, This is a marvelous political achievement. For years I have been trying to convince CCDC to allow us to provide PURY restraint database "http://pury.ijs.si/";, which is a compilation of CSDB, to unrestrained use to public via a web server interface. Now you have achieved this with

Re: [ccp4bb] Announcing a Web Server for the Grade ligand restraints generator.

2012-03-20 Thread dusan turk
Dear Gerard, This is a marvelous political achievement. For years I have been trying to convince CCDC to allow us to provide PURY restraint database "http://pury.ijs.si/";, which is a compilation of CSDB, to unrestrained use to public via a web server interface. Now you have achieved this with

Re: [ccp4bb] Announcing a Web Server for the Grade ligand restraints generator.

2012-03-20 Thread Oliver Smart
On Tue, 20 Mar 2012, George Sheldrick wrote: Dear Gerard, That will be an extremely useful facility. Is a 'regrading' of the monomer library planned, at least for common cofactors and crystallization additives? Best wishes, George George, Gerard asked me to reply. Yes providing pre-calcu

Re: [ccp4bb] Fwd: PhD Studentship at the University of Cambridge: Chemical Probes of Protein-Protein Interactions

2012-03-20 Thread ellene mashalidis
Hi Alessio, Just to let you know, the advertisement was posted to the CCP4bb. I received it yesterday. Hope this helps. Best, Ellene On 20 March 2012 15:32, Alessio Ciulli wrote: > Dear CCP4 > > any reason why this has not been posted yet to the mailing list? > > with best wishes, > > Alessio

[ccp4bb] Fwd: PhD Studentship at the University of Cambridge: Chemical Probes of Protein-Protein Interactions

2012-03-20 Thread Alessio Ciulli
Dear CCP4 any reason why this has not been posted yet to the mailing list? with best wishes, Alessio -- Forwarded message -- From: Alessio Ciulli Date: Mon, Mar 19, 2012 at 11:00 AM Subject: PhD Studentship at the University of Cambridge: Chemical Probes of Protein-Protein In

Re: [ccp4bb] Announcing a Web Server for the Grade ligand restraints generator.

2012-03-20 Thread Thomas Womack
On 20 Mar 2012, at 12:34, Eleanor Dodson wrote: > I would like to use this to check an existing ligand. I have the PDB refined > according to a cif file, and that cif file used for input to REFMAC and > phenix. > > I dont want to lose the atom names assigned there so is it possible to start >

[ccp4bb] van der Waals distances

2012-03-20 Thread David Mueller
Dear Crystallographers: I am mapping out van der Waals contacts between a small molecule and a protein. What are the generally accepted limits for positive van der Waals interactions? I am defining van der Waals interactions as the energy of interaction between permanent dipoles, plus the energy

Re: [ccp4bb] microseeding

2012-03-20 Thread Enrico Stura
Patrick, This thing all things devours: Birds, beasts, trees, flowers; Gnaws iron, bites steel; Grinds hard stones to meal; Slays king, ruins town And beats high mountains down. Answer: TIME When scaling up in seeding the most important factor is: "TIME" While the environment may be the

Re: [ccp4bb] Announcing a Web Server for the Grade ligand restraints generator.

2012-03-20 Thread Eleanor Dodson
I would like to use this to check an existing ligand. I have the PDB refined according to a cif file, and that cif file used for input to REFMAC and phenix. I dont want to lose the atom names assigned there so is it possible to start GRADE with one of those inputs or do I have to convert it to

[ccp4bb] Protein Biochemist - Peking University Beijing, China

2012-03-20 Thread Lorenzo Finci, Ph.D.
Protein Biochemist Position in Structural Neuroscience There is an immediate opening for an enthusiastic and experienced protein biochemist to join the international structural biology laboratory of Jia-Huai Wang based at Peking University in Beijing, China. The research is focused on the struc

Re: [ccp4bb] Refining Against Reflections?

2012-03-20 Thread Nicholas M Glykos
Hi Jacob, > Therefore, I was thinking an exposure-dependent parameter might be > introduced into the atomic models, as an exposure-dependent occupancy of > sorts. However, this would require refinement programs to use individual > observations as data rather than combined reflections, effective

Re: [ccp4bb] Announcing a Web Server for the Grade ligand restraints generator.

2012-03-20 Thread Herman . Schreuder
I would call it 'upgrading'. Best wishes, Herman -Original Message- From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of George Sheldrick Sent: Tuesday, March 20, 2012 8:57 AM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] Announcing a Web Server for the Grade ligand res

Re: [ccp4bb] Announcing a Web Server for the Grade ligand restraints generator.

2012-03-20 Thread George Sheldrick
Dear Gerard, That will be an extremely useful facility. Is a 'regrading' of the monomer library planned, at least for common cofactors and crystallization additives? Best wishes, George On 03/19/2012 06:22 PM, Gerard Bricogne wrote: Dear all, The generation of reliable restraints f