[ccp4bb] Open Group Leader position at Grenoble Outstation of EMBL

2013-10-09 Thread Stephen Cusack
Dear All, The Grenoble Outstation of the European Molecular Biology Laboratory is seeking to recruit a Group Leader in Structural Biology of Complexes. The appointed Group Leader will be an ambitious structural biologist with an original multidisciplinary research programme oriented towards

[ccp4bb] Beamline Scientist position at I24 Diamond

2013-10-09 Thread Robin Owen
Dear all, I24 is the microfocus MX beamline at Diamond offering a fully tuneable and versatile X-ray beam for some of the most challenging crystals in structural biology. There currently an opportunity to join I24 as a beamline scientist during an exciting period of significant upgrades and cha

Re: [ccp4bb] limited proteolysis / ms

2013-10-09 Thread R. M. Garavito
Gloria, Here is how we are now doing it, courtesy of Yu-Jing's and Merlin's fine development work. We have also tried it to quantitatively remove tags by TEV cleavage, but we haven't solved that problem yet. Regards, Michael Tan, Yu-Jing, Wei-Han Wang, Yi Zheng, Jinlan Dong, Giovanni Stefano

Re: [ccp4bb] repulsive effects of arginine

2013-10-09 Thread Nadir T. Mrabet
Resonance was to be understood exactly as meaning all the bonds are averaged between both types (single and double bonds). Furthermore, fluctuations in the immediate environment will affect electron distribution with time, as proteins exist in a dynamic state. Nadir Mrabet Pr. Nadir T. Mrabet

[ccp4bb] Phenix version 1.8.4 released

2013-10-09 Thread Paul Adams
The Phenix developers are pleased to announce that version 1.8.4 of Phenix is now available. Binary installers for Linux, Mac OSX, and Windows platforms are available at the download site: http://phenix-online.org/download/ Highlights from this version: Automated MR/ligand fitting/refi

[ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Navdeep Sidhu
John Bohannon wrote about his experience writing "a computer program to generate hundreds of unique papers." Thought some of you might find it of interest: John Bohannon. Who's Afraid of Peer Review? Science 342 (Oct. 4, 2013) 60-65. DOI: 10.1126/science.342.6154.60 http://www.sciencemag.org/con

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Folmer Fredslund
Hi Navdeep, I feel disappointed. (not your fault) I was hoping to see what kind of science was behind the computer program that generated the unique papers. That doesn't seem to be contained in the linked article. The article does, however, seem to be lacking in peer review itself? Or can anythi

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Lucas
2013/10/9 Folmer Fredslund > Hi Navdeep, > > I feel disappointed. (not your fault) > > I was hoping to see what kind of science was behind the computer program > that generated the unique papers. That doesn't seem to be contained in the > linked article. > > The article does, however, seem to be

Re: [ccp4bb] move ligand to fit the density in coot

2013-10-09 Thread Wei Shi
Hi all, Thank you guys so much for the useful suggestions. I could fit the ligand to electron density by doing the following: 1. Run Phenix. eLBOW by loading the smile string and generate the pdb file and cif file. 2. Import CIF dictionary and open pdb for the ligand generated in Phenix.eLBOW and p

[ccp4bb] Why nobody comments about the Nobel committee decision?

2013-10-09 Thread Alexander Aleshin
Sorry for a provocative question, but I am surprised why nobody comments/congratulations laureates with regard to recently awarded Nobel prizes? However, one of laureates in chemistry contributed to a popular method in computational crystallography. CHARMM -> XPLOR -> CNS -> PHENIX->… Alex Al

Re: [ccp4bb] Why nobody comments about the Nobel committee decision?

2013-10-09 Thread Klaus Fütterer
Perhaps because the (macromolecular) crystallography community is becoming a bit blase about Nobel prizes being awarded to one or several of its distinguished colleagues almost every year? (Ok, not quite). Klaus === Dr. Kl

[ccp4bb] השב: [ccp4bb] Why nobody comments about the Nobel committee decision?

2013-10-09 Thread Boaz Shaanan
Good point. Now since you mentioned contributions of the recent Nobel laureates to crystallography Mike Levitt also had a significant contribution through the by now forgotten Jack-Levitt refinement which to the best of my knowledge was the first time that x-ray term was added to the energy min

Re: [ccp4bb] השב: [ccp4bb] Why nobody comments about the Nobel committee decision?

2013-10-09 Thread Nat Echols
Levitt also contributed to DEN refinement (Schroder et al. 2007, 2010). -Nat On Wed, Oct 9, 2013 at 2:29 PM, Boaz Shaanan wrote: > Good point. Now since you mentioned contributions of the recent Nobel > laureates to crystallography Mike Levitt also had a significant > contribution through the

Re: [ccp4bb] השב: [ccp4bb] Why nobody comments about the Nobel committee decision?

2013-10-09 Thread Sweet, Robert
It deserves comment!! I've been too busy talking with my friends about it to think of CCP4. This morning on NPR I heard Karplus's name and started to whoop and holler, and by the time they got to Arieh I realized they had a Hat Trick!! It's a spectacular thing that this field should get recog

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Miguel Ortiz Lombardia
Hi denizens, Now that Biology has gone missing, at least in the programs of the funding agencies in this part of the world, the reflections that I'm going to expose concern at best that even smaller field of natural philosophy that we euphemistically call, not without a twist of candour, "biomedic

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Marco Lolicato
Hi scientists, this interesting topic brought back to my mind a similar discussion I had with a colleague of mine and now I want to share it with you guys. As Vale already pointed out, the peer-review process seems to be far from an ideal system: there are many papers in which one of the author i

[ccp4bb] {Spam?} Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Miguel Ortiz Lombardia
Hi Marco, Impact factor is the last refuge of the publishing system as it is. Precisely because in this ocean of untrusted publications we tend to believe that high impact factor journals deserve our respect. This is more or less all right: among those who have investigated the issue some are more

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread miguel
(Sorry if you get this twice. The first time as marked as junk by our email server. Well, it may be junk after all...) Hi Marco, Impact factor is the last refuge of the publishing system as it is. Precisely because in this ocean of untrusted publications we tend to believe that high impact fact

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Mark van Raaij
Even if you remove the authors it is often easy to ascertain who they are by reading the paper and reference list. Marco Lolicato wrote: >Hi scientists, >this interesting topic brought back to my mind a similar discussion I had with >a colleague of mine and now I want to share it with you guy

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Steiner, Roberto
Many (more) reviewers - [panic on Roberto's face] Isn't real peer-review just a question of standing the test of time? A piece of work blatantly wrong will sooner or later be picked up by someone (although I acknowledge that wrong papers can have serious consequences on one's ability to g

Re: [ccp4bb] OT: "Who's Afraid of Peer Review?"

2013-10-09 Thread Tom Murray-Rust
And just to add a little further to Mark's point, is there anyone here who has at some stage received reviewer comments and NOT immediately spent the next little while trying to deduce who each of the reviewers were? (especially if they were negative...) I would imagine most people have a pretty g