[ccp4bb] HKL2000
Dear all, I have a problem about HKL2000. I can start HKL2000 and load my data. I can only open images ending with .img and process them. However, osc images could not be opened and processed. There is no error message from HKL2000 main window. I can not figure out what is wrong with it. Can anybody do me a favor to solve the problem? Thank you in advance. Best wishes Wei Yong
Re: [ccp4bb] HKL2000
Some possible problems might include: 1) You do not have the proper site file for the detector used to collect the data. Most synchrotrons will provide these files on their websites. For example the site files for APS (SERCAT) can be found at http://www.ser.aps.anl.gov/new/hkl_2000.html Each file is specific for the individual beamline. Other synchrotrons should also have the relevant files for their detectors. 2) You do not have a current license from HKL to process images from the synchrotron. Sometimes if your license has expired, you are only able to process home source images, but not synchrotron images. You can contact HKL Research directly to see about updating you license http://www.hkl-xray.com/ In many cases, you can also get a short-term license that will allow you to process your synchrotron images. Good luck, Gene === Eugene Masters, Ph.D. mast...@southernresearch.org Postdoctoral Researcher Protein Crystallography Southern Research Institute 2000 Ninth Avenue South Birmingham, AL 35205 Office: 205- 581-2244 Fax: 205-581-2093 === Please see www.southernresearch.org for information about our capabilities. Southern Research Institute is affiliated with the University of Alabama at Birmingham. Confidentiality Notice The information contained in this communication and its attachments is intended only for the use of the individual to whom it is addressed and may contain information that is legally privileged, confidential, or exempt from disclosure. If the reader of this message is not the intended recipient, you are hereby notified that any dissemination, distribution, or copying of this communication is strictly prohibited. If you have received this communication in error, please notify mailto:postmas...@southernresearch.org (205) 581-2999, and delete the communication without retaining any copies. Thank you. -Original Message- From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of Yong, Wei Sent: Wednesday, February 11, 2009 11:53 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] HKL2000 Dear all, I have a problem about HKL2000. I can start HKL2000 and load my data. I can only open images ending with .img and process them. However, osc images could not be opened and processed. There is no error message from HKL2000 main window. I can not figure out what is wrong with it. Can anybody do me a favor to solve the problem? Thank you in advance. Best wishes Wei Yong
[ccp4bb] SUMMARY: Poor diffraction of eukaryotic membrane protein crystals
Thanks to everyone who responded with most helpful advice and suggestions. I have provided a summary of the suggestions (and clarifications to questions asked of me in return). Perma-Link to original question: https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=CCP4BB;AJMLIg;20090205170801%2B1300 __ · Concentrate protein with a higher molecular weight cutoff (e.g. 50-100 kDa). · Protein is known to form a tetramer, and by approximation from gel filtration elution, exists as a 126 kDa species (~114 kDa tetramer and ~22 kDa OG micelle). It usually elutes as a single, well-resolved peak (unless, for example, I am using it to exchange detergent). DLS has shown monodispersity in samples, but I don't use it routinely. · Dialyse protein overnight (routinely or after centrifugal concentration) to reduce and define the detergent concentration. · This can get expensive, using relatively large volumes detergent to make the dialysis buffer. Nonetheless the most recent crystals were obtained from dialysed protein. · Trial extraction, purification, and crystallisation with different detergents (using desalting or Q-sepharose columns). Poor diffraction could be indicative of detergent-mediated crystal contacts (rather than protein-protein). · Use of shorter detergents (e.g. Cymal-3 to -6) or mixed detergent micelles 1 Reconstruct sparse matrix screens with each different detergent 2 See Lemieux et al. (2003), Protein Science. · Identify membrane lipids associated with protein (in-house by TLC or otherwise). Retaining some native lipid or adding it back in at crystallization may improve crystal quality. Conversely total delipidation may also help. · Need to correlate successful crystallisation with presence/absence of lipid 1 Could try using lipid-like detergents (FC or DHPC) · Deglycosylation is checked on SDS-PAGE, and confirmed by the loss of higher molecular weight smears (which are present before deglycosylation reaction). · Alternatively protein could be digested with Endolgycosidase H, which leaves one GlcNac residue on each glycosylation site. This could improve crystal contacts. See Chang, V.T. et al. (2007) Glycoprotein structural genomics: solving the glycosylation problem. Structure 15(3):267-73 · Chemical modification of surface residues may improve crystal contacts, for example lysine methylation. · See Walter et al. (2006) Lysine methylation as a routine rescue strategy for protein crystallization. Structure 14(11):1617-22 1 Mutagenesis is another alternative, but we have not yet been successful producing a recombinant protein. * Adding salt (or PEG) to reservoir solution may promote crystal growth in the aqueous phase, rather than the 'oil/gel' phase. * Conditions producing the crystals grown in this 'gel' had PEG 1K or 2K as precipitant, and low [NaCl] present. (Is the suggestion 'to increase the concentration beyond that of the reservoir solution?'). * Test crystallisation conditions at low temperature (e.g. 4°C) · Test oils (paraffin or paraton-N) as cryoprotectants. Alternatively maintain detergent concentration in cryoprotectant. · Paratone oil (softened with some mineral oil) was used with poorly diffracting native crystals, and showed no improvement in diffraction. It has not been attempted with more recent protein crystals grown in presence of ligand. * Attempt to collect a 10Ang dataset and try MR with a close homolog. Many thanks. Regards, Damon. __ Damon Colbert School of Biological Sciences University of Auckland Email: d.colb...@auckland.ac.nz
[ccp4bb] fink update
Dear All, Is there anyone who recently updated fink in a macbook (OSX 10.5 with intel core 2 duo) using the following camands: fink selfupdate fink update-all I am getting some error message. It looks it can not connect kotoushu.ucsc.edu:80 I enclosed a part of the error message below: anand2:~ rajadey$ fink selfupdate Password: rsync -az -q rsync://msn.wi.us.finkmirrors.net/finkinfo//TIMESTAMP /sw/fink/TIMESTAMP.tmp I will now run the rsync command to retrieve the latest package descriptions. rsync -rtz --delete-after --delete -q --include='10.4/' --include='10.4/stable/' --include='10.4/stable/main/' --include='10.4/stable/main/finkinfo/' --include='10.4/stable/main/finkinfo/*/' --include='10.4/stable/main/finkinfo/*' --include='10.4/stable/main/finkinfo/**/*' --include='10.4/' --include='10.4/stable/' --include='10.4/stable/crypto/' --include='10.4/stable/crypto/finkinfo/' --include='10.4/stable/crypto/finkinfo/*/' --include='10.4/stable/crypto/finkinfo/*' --include='10.4/stable/crypto/finkinfo/**/*' --include='10.4/' --include='10.4/unstable/' --include='10.4/unstable/main/' --include='10.4/unstable/main/finkinfo/' --include='10.4/unstable/main/finkinfo/*/' --include='10.4/unstable/main/finkinfo/*' --include='10.4/unstable/main/finkinfo/**/*' --include='10.4/' --include='10.4/unstable/' --include='10.4/unstable/crypto/' --include='10.4/unstable/crypto/finkinfo/' --include='10.4/unstable/crypto/finkinfo/*/' --include='10.4/unstable/crypto/finkinfo/*' --include='10.4/unstable/crypto/finkinfo/**/*' --include='VERSION' --include='DISTRIBUTION' --include='README' --exclude='**' 'rsync://msn.wi.us.finkmirrors.net/finkinfo' '/sw/fink/' Downloading the indexes of available packages in the binary distribution. /sw/bin/apt-get-lockwait -q update Err http://kotoushu.ucsc.edu stable/main Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu stable/main Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu stable/crypto Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu stable/crypto Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/main Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/main Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/crypto Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/crypto Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu local/main Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu local/main Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Hit http://msn.wi.us.finkmirrors.net 10.5/release/main Packages Hit http://msn.wi.us.finkmirrors.net 10.5/release/main Release Hit http://msn.wi.us.finkmirrors.net 10.5/release/crypto Packages Hit http://msn.wi.us.finkmirrors.net 10.5/release/crypto Release Hit http://msn.wi.us.finkmirrors.net 10.5/current/main Packages Hit http://msn.wi.us.finkmirrors.net 10.5/current/main Release Hit http://msn.wi.us.finkmirrors.net 10.5/current/crypto Packages Hit http://msn.wi.us.finkmirrors.net 10.5/current/crypto Release Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/main/binary-darwin-i386/Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/main/binary-darwin-i386/Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/crypto/binary-darwin-i386/Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/crypto/binary-darwin-i386/Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/unstable/main/binary-darwin-i386/Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/unstable/main/binary-darwin-i386/Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed
Re: [ccp4bb] fink update
This is Bill Scott's machine, but it's no longer in service: http://xanana.ucsc.edu/~wgscott/xtal/wiki/index.php/Sources.list_for_10.5_and_10.4_intel_only You should be able to find the proper URLs somewhere on his website. On Wed, Feb 11, 2009 at 12:45 PM, Raja Dey deyra...@yahoo.co.in wrote: Dear All, Is there anyone who recently updated fink in a macbook (OSX 10.5 with intel core 2 duo) using the following camands: fink selfupdate fink update-all I am getting some error message. It looks it can not connect kotoushu.ucsc.edu:80 I enclosed a part of the error message below: anand2:~ rajadey$ fink selfupdate Password: rsync -az -q rsync://msn.wi.us.finkmirrors.net/finkinfo//TIMESTAMP/sw/fink/TIMESTAMP.tmp I will now run the rsync command to retrieve the latest package descriptions. rsync -rtz --delete-after --delete -q --include='10.4/' --include='10.4/stable/' --include='10.4/stable/main/' --include='10.4/stable/main/finkinfo/' --include='10.4/stable/main/finkinfo/*/' --include='10.4/stable/main/finkinfo/*' --include='10.4/stable/main/finkinfo/**/*' --include='10.4/' --include='10.4/stable/' --include='10.4/stable/crypto/' --include='10.4/stable/crypto/finkinfo/' --include='10.4/stable/crypto/finkinfo/*/' --include='10.4/stable/crypto/finkinfo/*' --include='10.4/stable/crypto/finkinfo/**/*' --include='10.4/' --include='10.4/unstable/' --include='10.4/unstable/main/' --include='10.4/unstable/main/finkinfo/' --include='10.4/unstable/main/finkinfo/*/' --include='10.4/unstable/main/finkinfo/*' --include='10.4/unstable/main/finkinfo/**/*' --include='10.4/' --include='10.4/unstable/' --include='10.4/unstable/crypto/' --include='10.4/unstable/crypto/finkinfo/' --include='10.4/unstable/crypto/finkinfo/*/' --include='10.4/unstable/crypto/finkinfo/*' --include='10.4/unstable/crypto/finkinfo/**/*' --include='VERSION' --include='DISTRIBUTION' --include='README' --exclude='**' 'rsync:// msn.wi.us.finkmirrors.net/finkinfo' '/sw/fink/' Downloading the indexes of available packages in the binary distribution. /sw/bin/apt-get-lockwait -q update Err http://kotoushu.ucsc.edu stable/main Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu stable/main Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu stable/crypto Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu stable/crypto Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/main Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/main Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/crypto Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu unstable/crypto Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu local/main Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Err http://kotoushu.ucsc.edu local/main Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Hit http://msn.wi.us.finkmirrors.net 10.5/release/main Packages Hit http://msn.wi.us.finkmirrors.net 10.5/release/main Release Hit http://msn.wi.us.finkmirrors.net 10.5/release/crypto Packages Hit http://msn.wi.us.finkmirrors.net 10.5/release/crypto Release Hit http://msn.wi.us.finkmirrors.net 10.5/current/main Packages Hit http://msn.wi.us.finkmirrors.net 10.5/current/main Release Hit http://msn.wi.us.finkmirrors.net 10.5/current/crypto Packages Hit http://msn.wi.us.finkmirrors.net 10.5/current/crypto Release Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/main/binary-darwin-i386/Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/main/binary-darwin-i386/Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/crypto/binary-darwin-i386/Packages Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch http://kotoushu.ucsc.edu/fink_intel/dists/stable/crypto/binary-darwin-i386/Release Could not connect to kotoushu.ucsc.edu:80 (128.114.150.90). - connect (61 Connection refused) Failed to fetch
[ccp4bb] fink update
Dear Friends, I incorporated 3 new lines in /sw/etc/apt/sources.list file deb http://sage.ucsc.edu/fink_intel_10.5_onlystable main crypto deb http://sage.ucsc.edu/fink_intel_10.5_only unstable main crypto deb http://sage.ucsc.edu/fink_intel_10.5_only local main and then run 'fink selfupdate' and 'fink update-all' I got some error at the end. See below: Last login: Wed Feb 11 14:51:20 on ttys006 anand2:~ rajadey$ fink selfupdate rsync -az -q rsync://msn.wi.us.finkmirrors.net/finkinfo//TIMESTAMP /sw/fink/TIMESTAMP.tmp I will now run the rsync command to retrieve the latest package descriptions. rsync -rtz --delete-after --delete -q --include='10.4/' --include='10.4/stable/' --include='10.4/stable/main/' --include='10.4/stable/main/finkinfo/' --include='10.4/stable/main/finkinfo/*/' --include='10.4/stable/main/finkinfo/*' --include='10.4/stable/main/finkinfo/**/*' --include='10.4/' --include='10.4/stable/' --include='10.4/stable/crypto/' --include='10.4/stable/crypto/finkinfo/' --include='10.4/stable/crypto/finkinfo/*/' --include='10.4/stable/crypto/finkinfo/*' --include='10.4/stable/crypto/finkinfo/**/*' --include='10.4/' --include='10.4/unstable/' --include='10.4/unstable/main/' --include='10.4/unstable/main/finkinfo/' --include='10.4/unstable/main/finkinfo/*/' --include='10.4/unstable/main/finkinfo/*' --include='10.4/unstable/main/finkinfo/**/*' --include='10.4/' --include='10.4/unstable/' --include='10.4/unstable/crypto/' --include='10.4/unstable/crypto/finkinfo/' --include='10.4/unstable/crypto/finkinfo/*/' --include='10.4/unstable/crypto/finkinfo/*' --include='10.4/unstable/crypto/finkinfo/**/*' --include='VERSION' --include='DISTRIBUTION' --include='README' --exclude='**' 'rsync://msn.wi.us.finkmirrors.net/finkinfo' '/sw/fink/' Downloading the indexes of available packages in the binary distribution. /sw/bin/apt-get-lockwait -q update Hit http://sage.ucsc.edu stable/main Packages Hit http://sage.ucsc.edu stable/main Release Hit http://sage.ucsc.edu stable/crypto Packages Hit http://sage.ucsc.edu stable/crypto Release Hit http://sage.ucsc.edu unstable/main Packages Hit http://sage.ucsc.edu unstable/main Release Hit http://sage.ucsc.edu unstable/crypto Packages Hit http://sage.ucsc.edu unstable/crypto Release Hit http://sage.ucsc.edu local/main Packages Hit http://sage.ucsc.edu local/main Release Hit http://msn.wi.us.finkmirrors.net 10.5/release/main Packages Hit http://msn.wi.us.finkmirrors.net 10.5/release/main Release Hit http://msn.wi.us.finkmirrors.net 10.5/release/crypto Packages Hit http://msn.wi.us.finkmirrors.net 10.5/release/crypto Release Hit http://msn.wi.us.finkmirrors.net 10.5/current/main Packages Hit http://msn.wi.us.finkmirrors.net 10.5/current/main Release Hit http://msn.wi.us.finkmirrors.net 10.5/current/crypto Packages Hit http://msn.wi.us.finkmirrors.net 10.5/current/crypto Release Reading Package Lists... Building Dependency Tree... Scanning package description files.. Information about 7797 packages read in 2 seconds. No packages to install. The core packages have been updated. You should now update the other packages using commands like 'fink update-all'. anand2:~ rajadey$ fink update-all Information about 7797 packages read in 0 seconds. The following 22 packages will be installed or updated: coot coot-shlibs gnome-themes-glossy-p gnome-vfs2-ssl-shlibs gtk2-engines gtkglarea2 gtkglarea2-shlibs gtkglext1 gtkglext1-shlibs guile18-gtk guile18-gtk-dev guile18-gtk-shlibs guile18-gui guile18-www libglade2 libglade2-shlibs libgnomecanvas2-dev libgnomecanvas2-shlibs librsvg2-gtk librsvg2-shlibs pygtk2-gtk-py25 pygtk2-gtk-py25-dev The following 4 additional packages will be installed: gtk+2 gtk+2-dev gtk+2-shlibs guile18-lib Do you want to continue? [Y/n] Y Reading buildlock packages... /sw/bin/dpkg-lockwait -i /sw/var/cache/apt/archives/gnome-vfs2-ssl-shlibs_1%3a2.20.1-1_darwin-i386.deb (Reading database ... 47557 files and directories currently installed.) Preparing to replace gnome-vfs2-ssl-shlibs 1:2.15.2-2 (using .../gnome-vfs2-ssl-shlibs_1%3a2.20.1-1_darwin-i386.deb) ... Unpacking replacement gnome-vfs2-ssl-shlibs ... Setting up gnome-vfs2-ssl-shlibs (2.20.1-1) ... Reading buildlock packages... /sw/bin/dpkg-lockwait -i /sw/var/cache/apt/archives/gtk+2-dev_2.14.7-2_darwin-i386.deb /sw/var/cache/apt/archives/gtk+2_2.14.7-2_darwin-i386.deb /sw/var/cache/apt/archives/gtk+2-shlibs_2.14.7-2_darwin-i386.deb (Reading database ... 47557 files and directories currently installed.) Preparing to replace gtk+2-dev 2.14.7-2 (using .../gtk+2-dev_2.14.7-2_darwin-i386.deb) ... Unpacking replacement gtk+2-dev ... Preparing to replace gtk+2 2.14.7-2 (using .../gtk+2_2.14.7-2_darwin-i386.deb) ... Unpacking replacement gtk+2 ... Preparing to replace gtk+2-shlibs 2.14.7-2 (using .../gtk+2-shlibs_2.14.7-2_darwin-i386.deb) ... Unpacking replacement gtk+2-shlibs ... Setting up gtk+2-shlibs (2.14.7-2) ... dyld: Library
[ccp4bb] Postdoc position in neutron protein crystallography
Postdoctoral Position in Neutron Protein Crystallography == Bioscience Division at Los Alamos National Laboratory runs a neutron protein crystallography station (PCS) as a user facility for the structural biology community. There is a position immediately available in the PCS team for a postdoctoral fellow to study the function and regulation of protein kinases using neutron protein crystallography. This work will be carried out in collaboration with a highly interdisciplinary team of collaborators from the campuses of the University of California. Experience and expertise in protein expression, purification, crystallization and X-ray macromolecular crystallography are required and the project will involve frequent exchange visits between UC campuses and Los Alamos National Laboratory. For further technical information or inquiries, contact Paul Langan at langan_p...@lanl.gov or (505) 665-8125. Paul Langan B-Division MS M888 Los Alamos National Laboratory Los Alamos NM87545 USA Tel: 505 665 8125 Fax: 505 665 3024 email: langan_p...@lanl.gov http://www.lanl.gov/orgs/b/people_pages/langan_paul.shtml
[ccp4bb] If you need a Stereo 3D-capable LCD today...
Attention Stereo 3D Users: If you must obtain a Stereo 3D-capable LCD for use with PyMOL *today*, then, in our view, the Zalman Trimon ZM-M220W 22 LCD is the display you should buy: http://www.zalman.co.kr/eng/product/Product_read.asp?Idx=219 (Google: http://www.google.com/products?q=ZM-M220W ) Having directly used and evaluated most of the other low-cost options (under 1,000 USD): iZ3D, Samsung 3D DLP and 120 Hz LCD, it is apparent that none of these other non-CRT displays are an effective solution for desktop stereo 3D at this exact moment in time. But I can personally attest to the fact that the ~$650 USD Zalman ZM-M220W works great, and that its stereo quality with PyMOL is excellent under Mac, Windows, and Linux: ghost-free and not too grainy. It is also a perfectly decent LCD for ordinary 2D use. So at last! We have a cost-effective viable alternative to CRTs for desktop stereo 3D visualization (at least with PyMOL, VMD, and a few other packages. Hopefully more to come!), and you don't even need a Quadro card to use it! The current PyMOL open-source code trunk already supports this display (compile and launch as: ./pymol -S -t 6), and our PyMOL 1.2b3 incentive builds (imminent) support it as well. Note however that we may shift our desktop stereo-3D recommendation over to the 120 Hz Samsung 2233RZ LCD if or when nVidia adds support for its use with Quadro-based cards OpenGL API under Windows, Mac OS, Linux (hopefully!). Eventually, the Samsung 120 Hz LCD should be the better display, but right now it is utterly useless due to lack of drivers for the accompanying USB emitter and glasses. Furthermore, we expect the Samsung 120 Hz LCD display (and/or the ViewSonic equivalent) to have the added advantage of being able to work with existing OpenGL stereo 3D software (without modification). So if you do not need a stereo 3D-capable LCD display today, then you might just wait a couple of months to see how things shake out. Cheers, Warren L. DeLano, Ph.D. DeLano Scientific LLC PS. Although PyMOL does also now support iZ3D and 3D HDTV DLP displays, neither is a practical solution for desktop 3D molecular visualization. The iZ3D does not achieve complete L/R image separation, and 3D HDTVs must sacrifice far too many pixels around the edge of the screen when in stereo 3D mode.
[ccp4bb] leela shetty sent you a Friend Request on Yaari
leela shetty wants you to join Yaari! Is leela your friend? a href=http://yaari.com/?controller=useraction=mailregisterfriend=1sign=YaariFAX206CTH716ADY697ETP776;Yes, leela is my friend!/a a href=http://yaari.com/?controller=useraction=mailregisterfriend=0sign=YaariFAX206CTH716ADY697ETP776;No, leela isn't my friend./a Please respond or leela may think you said no :( Thanks, The Yaari Team If you prefer not to receive this email tell us a href=http://yaari.com/?controller=absnaction=addoptoutemail=ccp...@jiscmail.ac.uk;here/a. If you have any concerns regarding the content of this message, please email ab...@yaari.com. Yaari LLC, 358 Angier Ave, Atlanta, GA 30312 YaariFAX206CTH716ADY697ETP776
[ccp4bb] Post-doctoral Position at WEHI, Melbourne, AUSTRALIA
An attractive post-doctoral position is available within the laboratory of Dr Mike Lawrence and Dr Colin Ward in the Structural Biology Division of the Walter and Eliza Hall Institute of Medical Research (WEHI) in Melbourne, Australia. The position is available immediately and is for two years in the first instance. Experience in protein purification and protein crystallization is essential. The project involves studying the structural biology of the interaction between the insulin-like growth factors and the ectodomain of the Type 1 insulin-like growth factor receptor. The project builds on the PIs’ earlier success in determining the structure of the insulin receptor ectodomain (for a review see Lawrence MC, McKern NM, Ward CW, Curr Opin Struct Biol. 2007, 17:699-705). For more information regarding the project please contact Dr Mike Lawrence (email lawre...@wehi.edu.au). The Walter and Eliza Hall Institute of Medical Research is located in Parkville, just north of Melbourne's CBD and is one of the world's leading medical research centres. The work of the Institute covers cancer, genetics, malaria, autoimmune diseases, medicinal chemistry, drug discovery and translational research taking scientific discoveries from the laboratory to the clinic. The Structural Biology Division is well equipped, housing in particular a Rigaku Micromax-007 X-ray generator, with two Raxis IV++ detectors, AXCO micro-capillary focussing optics and X-stream cryo- units. In addition, WEHI is a Partner in the Bio21 Collaborative Crystallization Centre, which houses state-of-the-art protein crystallization robotics. The newly-operational Australian Synchrotron is approximately 20 km from WEHI and has two PX beamlines. Access is guaranteed by means of WEHI's Foundation Investor status. Please forward applications by email to jobapplicati...@wehi.edu.au. Cite the ccp4bb as the advertisement source and include a covering letter, curriculum vitae and contact details for three referees. The closing date is 26 February 2009.
