[ccp4bb] Amazing B-factor

2009-06-01 Thread Jian Wu
Dear all, Recently we have collected one set of data which is processed to 2.9A and 3.0A and the Wilson-B values are 50.1 and 59.1, respectively. As for the completeness of the highest shell is only 66% in 2.9A (80% in 3.0A), we use the dataset with 3.0A for phasing and refinement. Everything is

Re: [ccp4bb] 3D LCD and glasses

2009-06-01 Thread Stuart McNicholas
Robert Esnouf wrote: Dear All, I see that the UK is catching up and the NVIDIA Geforce 3D Vision Bundle (Samsung 2233RZ 22 LCD + NVIDIA GeForce 3D Vision Glasses) is now available for ~£350. Can I reveal my ignorance and ask whether (with a suitable graphics card) this kit gives decent 3D

Re: [ccp4bb] coupling between occupancy and b-values in refinement

2009-06-01 Thread mb1pja
Dear Patrick Long ago we (Cheetham et a (1992) J Molec Biol 224:613-628) did some refinements on hen lysozyme + substrate complexes at 1.75A and 2A resolution and showed that B and occupancy are negatively correlated, especially at 2.0A. In simplistic terms this is because at medium

[ccp4bb] Postdoc ad: PX at SGC (U of Oxford)

2009-06-01 Thread Frank von Delft
Hi I am recruiting for a postdoc position in my group, available immediately. This is the Protein Crystallography group of the Structural Genomics Consortium, Oxford. In particular, hard-core crystallographers strong on theory and (optionally) with a bent for programming, are invited to

Re: [ccp4bb] coupling between occupancy and b-values in refinement

2009-06-01 Thread Ian Tickle
Hi Pat I concur with George, we routinely refine together the group B factor and occupancy of our ligands and frequently see significant deviations of the group occupancy from the starting value even if it is highly correlated with the group B factor (the significance test takes account of the

Re: [ccp4bb] 3D LCD and glasses

2009-06-01 Thread Warren DeLano
Stuart, Robert, Others, I believe Stuart is confusing the Samsumg 2233rz frame-sequential stereo 3D display with the Zalman M220W interlaced stereo 3D solution. Due to lack of driver support, as far as I know, the Samsung isn't yet supported by any OpenGL-based software, although nVidia has

[ccp4bb] Amazing B-factor

2009-06-01 Thread Jian Wu
Dear all, Recently we have collected one set of data which is processed to 2.9A and 3.0A and the Wilson-B values are 50.1 and 59.1, respectively. As for the completeness of the highest shell is only 66% in 2.9A (80% in 3.0A), we use the dataset with 3.0A for phasing and refinement. Everything is

Re: [ccp4bb] 3D LCD and glasses

2009-06-01 Thread Stuart McNicholas
Warren DeLano wrote: Stuart, Robert, Others, I believe Stuart is confusing the Samsumg 2233rz frame-sequential stereo 3D display with the Zalman M220W interlaced stereo 3D solution. Due to lack of driver support, as far as I know, the Samsung isn't yet supported by any OpenGL-based

[ccp4bb] Request recommendation for the peptide synthesis company

2009-06-01 Thread ping sun
Dear All, I would appreciate if anyone could recommend any company for long peptide synthesis? It will be better if it is reliable and reasonable priced. The peptide we want to synthesis is around 40-50aa long, should be HPLC grade and above 98% purity. Thank you! Ping Sun National Cancer

Re: [ccp4bb] BioRad CFX96 for thermofluor/DSF?

2009-06-01 Thread artem
Use the FRET channel - it's ideal for SYPRO orange. Artem Sorry Charlie for the late reply. I'm using the CFX96 5 channel with Sypro and other dyes. I tested the machine against the Eppendorf product nd decided to go for the Biorad version as running identical samples gave better results on

Re: [ccp4bb] Request recommendation for the peptide synthesis company

2009-06-01 Thread Pius Padayatti
ping, we had great success as far as price and level of synthesis with a company called Synbiosci, Livermore, CA. I am no way connected to this company but just a suggestion. hope it helps psp On Mon, Jun 1, 2009 at 10:31 AM, ping sun ccp4@gmail.com wrote: Dear All, I would appreciate if

Re: [ccp4bb] coupling between occupancy and b-values in refinement

2009-06-01 Thread Dale Tronrud
Hi, I have to take issue with one of Ian's points. His statement that the integral of the electron density does not change with the change in a B factor but does change with a change in occupancy is the equivalent to stating that the integral of an occupancy difference map feature is nonzero

Re: [ccp4bb] Amazing B-factor

2009-06-01 Thread Dale Tronrud
Dear Jain, The Wilson plot is based on the assumption that you can model your structure with a collection of atoms randomly distributed in the unit cell. This model is very poor at low resolution, say, 4.5A and lower. Since the Wilson B depends on the change in scattering as a function of

Re: [ccp4bb] BioRad CFX96 for thermofluor/DSF?

2009-06-01 Thread Asmussen, Gary
Hi, I've used the CFX96 with the FRET channel for DSF and found it to work well. Gary -Original Message- From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of ar...@xtals.org Sent: Monday, June 01, 2009 11:47 AM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] BioRad

[ccp4bb] Position available in Frankfurt

2009-06-01 Thread Tatsuya KAMINISHI
A PhD and a Postdoctoral position are immediately available in the Ribosome Crystallography Group led by Prof. Dr. Paola Fucini, in the Cluster of Excellence for Macromolecular Complexes and Johann Wolfgang Goethe University. The candidates will participate in the ongoing research of the

Re: [ccp4bb] Seeding

2009-06-01 Thread vikas navratna
Dear HengChiat Tai (a) According to me Seed Solutions should be stored depending on the stability of the crystals in the drop. If your crystal goes bad quite early then you have to make fresh seed frequently. Its always a good habit to make fresh seed, everytime you do streaking. (b) The