Re: [ccp4bb] CCP4BB Digest - 26 Apr 2010 to 27 Apr 2010 (#2010-114)

2010-04-27 Thread Matthew E Thornton
CCP4BB automatic digest system wrote: >There are 20 messages totaling 5953 lines in this issue. > >Topics of the day: > > 1. Help with Bayes's theorem (4) > 2. programmatic symmetry mate generation > 3. > 4. Sonication e.coli parameters > 5. X-Ray films > 6. X-Ray films [SEC=UNCLASSIFIED

[ccp4bb] Job opportunity in Australia

2010-04-27 Thread Peter Czabotar
An exciting opportunity exists for a Research Officer to join the Structural Biology and Chemical Biology Divisions to study the molecular details of the Bcl-2 family of proteins and their role in apoptosis. The Bcl-2 protein family plays a central role in apoptotic regulation. The family cons

[ccp4bb] maximum B-factor of metal ion

2010-04-27 Thread james09 pruza
Dear All, What would be the range of B-factor (Maximum temperature factor) for a metal in a protein-metal complex? Thanks in advance for the help. James...

[ccp4bb] question on non-origin patterson peaks

2010-04-27 Thread Fengyun Ni
Hi, Our data were indexed as R3 or R32 space group. Several larege non-origin peaks were found (see the text below) in native Patterson map of R3. But no obvious peaks were found in self-rotation searching. Does this indicate the presence of translational symmetry? However, the patterson map of R

Re: [ccp4bb] Help with Bayes's theorem

2010-04-27 Thread James Stroud
On Apr 27, 2010, at 3:08 AM, Colin Nave wrote: Sean Eddy who is an author on the above link wrote what I regard as an excellent intro to Bayesian statistics ftp://selab.janelia.org/pub/publications/Eddy-ATG3/Eddy-ATG3-reprint.pdf To get the expression for E(Bob wins) (3rd equation on page 117

Re: [ccp4bb] Crystallography Near Venice/Padova Italy

2010-04-27 Thread Flip Hoedemaeker
Dip. Scienze Chimiche and Istituto di Chimica Biomolecolare del CNR, sezione di Padova Universita di Padova Via Marzolo, 1 I-35131 Padova Copied from http://www.weizmann.ac.il/esf_xtal/ which is the first place to look if you want to find crystallographers in Europe. I think it is quite up-to-d

Re: [ccp4bb] Crystallography Near Venice/Padova Italy

2010-04-27 Thread Frederic VELLIEUX
Hi, Padova: Giuseppe Zanotti and Paola Spadon (Universita degli studi di Padova); Verona: Ugo Monaco (Universita degli studi di Verona, I think). I don't think there is any protein crystallography in Venezia. If you go further east, then there is Trieste... Fred. > Message du 27/04/10 19:28 >

[ccp4bb] Crystallography Near Venice/Padova Italy

2010-04-27 Thread Jacob Keller
Dear Crystallographers, is anyone here aware of structural biology or otherwise crystallography-intensive labs around the Venice/Padova region? Thanks, Jacob Keller *** Jacob Pearson Keller Northwestern University Medical Scientist Training Program Dal

[ccp4bb] Crystal Positioning System Pucks - Tested

2010-04-27 Thread Cyndi Salbego
NE-CAT (MX beamlines at APS) placed an order and tested pucks from http://www.crystalpositioningsystems.com/ and found that they worked well! We would definitely recommend that this be considered as a source for ALS style pucks. These pucks were used with this setup that we have: http://neca

[ccp4bb] Postdoctoral Fellowship in Membrane Protein Crystallography in Houston

2010-04-27 Thread Spudich, John L
A Postdoctoral fellowship is available to study the structure and function of microbial sensory rhodopsins. The position requires a recent Ph.D. in one of the natural sciences relevant to structural biochemistry. Applicants must be highly motivated and must have demonstrated experience (i.e. re

Re: [ccp4bb] Substitute for Lithium Sulfate

2010-04-27 Thread Ed Pozharski
Transferring crystal into mother liquor minus lithium sulfate plus ligand may work (consider both direct and stepwise transfer). Worked for us recently when 0.2M sodium malonate was competing out the ligand (which is ironic given that sodium malonate would be my first choice of replacing ammonium

Re: [ccp4bb] Help with Bayes's theorem

2010-04-27 Thread Michel Fodje
The opinionator piece is misleading about the meaning of probability, especially as it implies that you could reformulate every problem into one about frequencies. As was pointed out a long time ago by Harold Jeffreys and repeated by Ed Jaynes, "The essence of the present theory is that no pro

Re: [ccp4bb] Protein topology plot

2010-04-27 Thread Ethan Merritt
On Tuesday 27 April 2010, Klaus Sengstack wrote: > Hi everybody, > > I´m looking for a program to generate a topology plot of a β-propeller fold. > The server for "Topdraw" seems not to work anymore. The source and scripts to run topdraw are included in the ccp4i directories. You can run them d

[ccp4bb] Protein topology plot

2010-04-27 Thread Klaus Sengstack
Hi everybody, I´m looking for a program to generate a topology plot of a β-propeller fold. The server for "Topdraw" seems not to work anymore. Can anybody recommend another server/program? Best regards.

[ccp4bb] PhD position in structural biology - Bordeaux - France

2010-04-27 Thread Bernard Gallois
PhD POSITION IN STRUCTURAL BIOLOGY - BORDEAUX – FRANCE. Protein-protein interactions are a central issue in biological processes, and represent relevant therapeutic targets for the treatment of many diseases. The design of antagonistic molecules directed towards the disruption of these interac

Re: [ccp4bb] Help with Bayes's theorem

2010-04-27 Thread Colin Nave
This is quite a good one as well http://www.inference.phy.cam.ac.uk/mackay/pope.html I recall the pope analysis followed on from a Nature article covering the O J Simpson example (also covered in the NY times link). Sean Eddy who is an author on the above link wrote what I regard as an excellen

Re: [ccp4bb] X-Ray films [SEC=UNCLASSIFIED]

2010-04-27 Thread DUFF, Anthony
For minimum offense of the science, Contact (1997) was good. Anthony Anthony DuffTelephone: 02 9717 3493 Mob: 043 189 1076 -Original Message- From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of DUFF, Anthony Sent: Tuesday, 27 April 2010 5:00 PM To: CCP4BB@JISCMAI

Re: [ccp4bb] X-Ray films [SEC=UNCLASSIFIED]

2010-04-27 Thread DUFF, Anthony
At the other end, featuring at one stage giant diamonds (carbon crystallised in magma) is "The Core (2003)", which someone described as a movie designed to annoy all scientists as much a possible. Anthony Anthony DuffTelephone: 02 9717 3493 Mob: 043 189 1076 harry powell wrote: > Hi > >