[ccp4bb] Permanent research position in protein serial crystallography at the Institute of Structural Biology in Grenoble, France
*Permanent research position in protein serial crystallography at the Institute of Structural Biology in Grenoble, France* The DYNAMOP group at the Institute of Structural Biology (www.ibs.fr <http://www.ibs.fr>) seeks candidates for a permanent research expert in the field of protein serial crystallography, funded by the Commissariat à l’Energie Atomique (www.cea.fr <http://www.cea.fr>). The researcher is expected to join serial crystallography experiments (static and time-resolved) at XFELs and synchrotrons and to carry out all steps of data processing and analysis, as well as (intermediate-state) structure refinement and analysis. Examples of recent achievements of the DYNAMOP group and its collaborators in the field of serial crystallography include: Tetreau et al. (2022) Nat Commun 13: 4376 Sorigue et al. (2021) Science 372 :6538 Woodhouse et al. (2020) Nat Commun 11: 741 For a detailed job advertisement see https://www.emploi.cea.fr/job/emploi-ingenieur-chercheur-en-cristallographie-serielle-h-f_25410.aspx?LCID=2057. For informal inquiries, please contact Martin Weik (w...@ibs.fr). -- Martin Weik Structural Protein Dynamics Research Team Institut de Biologie Structurale CAMPUS EPN 71 avenue des Martyrs CS10090 38044 Grenoble Cedex 9; France Phone:(33) 4 57 42 85 80 email: w...@ibs.fr http://www.ibs.fr/groups/dynamics-and-kinetics-of-molecular/structural-protein-dynamics/?lang=en To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
[ccp4bb] PhD opening, Grenoble, France: time-resolved SFX
Structural dynamics of light-sensitive proteins studied by time-resolved crystallography at XFELs We have an opening for a PhD student at the /Institut de Biologie Structurale/ (www.ibs.fr <http://www.ibs.fr>) in Grenoble, France, to study the structural dynamics of light-sensitive proteins by time-resolved serial crystallography at XFELs and potentially future 4^th generation synchrotrons. Serial femtosecond crystallography (SFX) at X-ray free electron lasers (XFEL) allows studying crystalline proteins /at work/ by means of time-resolved crystallography (TR-SFX). We apply TR-SFX to explore conformational changes after photon absorption by various light-sensitive proteins on a broad time scale ranging from sub-picoseconds to seconds (Nature Chemistry 10, 31 (2018); Nature Communications 11, 741 (2020)). These animate structures obtained by static SFX (J Phys Chem Lett 7, 882 (2016); Nature 539, 43 (2016)). Experiments are being carried out at the XFELs in Hamburg (EuXFEL), in Japan (SACLA), at Stanford (LCLS), in Switzerland (SwissFEL) and are planned to take place at the newly upgraded ESRF synchrotron. For details on our research and collaborators, see: http://www.ibs.fr/research/research-groups/dynamics-and-kinetics-of-molecular-processes-group-m-weik/structural-protein-dynamics/ http://www.ibs.fr/research/research-groups/dynamics-and-kinetics-of-molecular-processes-group-m-weik/snax/ We welcome applications from students trained in protein biophysics, and preferably in crystallography. If you are interested, please contact either Martin Weik (w...@ibs.fr <mailto:w...@ibs.fr>) or Jacques-Philippe Colletier (collet...@ibs.fr). -- Martin Weik Structural Protein Dynamics Research Team Institut de Biologie Structurale CAMPUS EPN 71 avenue des Martyrs CS10090 38044 Grenoble Cedex 9; France Phone:(33) 4 57 42 85 80 email: w...@ibs.fr http://www.ibs.fr/groups/dynamics-and-kinetics-of-molecular/structural-protein-dynamics/?lang=en To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
[ccp4bb] Les Houches-TSRC Workshop on Protein Dynamics, June 7-12, 2020
*Les Houches-TSRC Workshop on Protein Dynamics, June 7-12, 2020* We cordially invite applications to participate in the 4th edition of the Protein Dynamics Workshop to be held in Les Houches, close to Chamonix/Mont Blanc, in the French Alps from June 7-12, 2020. This workshop gathers about 70 speakers and participants working in the wide area of protein dynamics, in the outstanding location of the historical Ecole de Physique des Houches, an environment ideally suited for exchange of ideas and fostering collaborations. About 30 invited speakers will give oral presentations that comprise a pedagogic introduction to the methodology employed, followed by applications from their own work, and a particular emphasis on discussions within the cross-disciplinary participants.* * Please find information on our website https://tinyurl.com/protdyn2020 The organizing committee Enrica Bordignon <http://www.google.com/url?q=http%3A%2F%2Fwww.epr.rub.de%2Findex.html=D=1=AFQjCNHtxv5thR32bW3XW8Cp2S0tFWs2Ow> (Ruhr University Bochum, Germany) Matthias Heyden <https://www.google.com/url?q=https%3A%2F%2Fsms.asu.edu%2Fmatthias_heyden=D=1=AFQjCNH8SKLu-phEk4OP5K7-lBz0qtoUhA> (Arizona State University, USA) Paul Schanda <https://www.google.com/url?q=https%3A%2F%2Fwww.ibs.fr%2Fresearch%2Fresearch-groups%2Fbiomolecular-nmr-spectroscopy-group-paul-schanda%2Fsolid-state-nmr-and-dynamics-team%2F%3Flang%3Den=D=1=AFQjCNG6YXBVC2PBOBeww4jKS5uI0Wd-mQ> (Institut de Biologie Structurale, Grenoble, France) Ben Schuler <https://www.google.com/url?q=https%3A%2F%2Fwww.bioc.uzh.ch%2Fschuler%2F=D=1=AFQjCNHg7wjuSwCmf7EQPVIN6siTcK8dYQ> (University of Zurich, Switzerland) Martin Weik <https://www.google.com/url?q=https%3A%2F%2Fwww.ibs.fr%2Fresearch%2Fresearch-groups%2Fdynamics-and-kinetics-of-molecular-processes-group-m-weik%2F=D=1=AFQjCNEbJFB4-vksomB40B_KZGFAaWNEkw> (Institut de Biologie Structurale, Grenoble, France) -- Martin Weik Structural Protein Dynamics Research Team Institut de Biologie Structurale CAMPUS EPN 71 avenue des Martyrs CS10090 38044 Grenoble Cedex 9; France Phone:(33) 4 57 42 85 80 email: w...@ibs.fr http://www.ibs.fr/groups/dynamics-and-kinetics-of-molecular/structural-protein-dynamics/?lang=en To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
[ccp4bb] IBS/Grenoble: postdoc and PhD openings in time-resolved crystallography at XFELs and synchrotrons
We have immediate openings for two postdoctoral researchers and one PhD student at the /Institut de Biologie Structurale/ (www.ibs.fr <http://www.ibs.fr>) in Grenoble, France, to study the structural dynamics of light-sensitive proteins by time-resolved serial crystallography at XFELs and potentially future 4^th generation synchrotrons. Serial femtosecond crystallography (SFX) at X-ray free electron lasers (XFEL) allows studying the structural dynamics of crystalline proteins by means of time-resolved crystallography (TR-SFX). We apply TR-SFX to explore conformational changes after photon absorption by various light-sensitive proteins on a broad time scale ranging from sub-picoseconds to seconds (Nature Chemistry 10, 31 (2018)). These animate structures obtained by static SFX (J Phys Chem Lett 7, 882 (2016); Nature 539, 43 (2016). At the postdoctoral level, we are looking for highly motivated individuals with a proven record in macromolecular crystallography with a keen interest in data processing and handling and intermediate-state structure refinement. At the PhD level, we welcome applications from students trained in protein biophysics, and preferably in crystallography. If you are interested, please contact either Martin Weik (w...@ibs.fr <mailto:w...@ibs.fr>) or Jacques-Philippe Colletier (collet...@ibs.fr). -- Martin Weik Structural Protein Dynamics Research Team Institut de Biologie Structurale CAMPUS EPN 71 avenue des Martyrs CS10090 38044 Grenoble Cedex 9; France Phone:(33) 4 57 42 85 80 email: w...@ibs.fr http://www.ibs.fr/groups/dynamics-and-kinetics-of-molecular/structural-protein-dynamics/?lang=en To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
[ccp4bb] Les Houches/TSRC Workshop on Protein Dynamics, Chamonix Valley, May 27-June 1, 2018
Dear colleague, A few participant slots remain for the *Les Houches/TSRC Workshop on Protein Dynamics*, to be held in *Les Houches, close to Chamonix * at the heart of the French Alps, from *May 27 to June 1, 2018.* This international workshop is a forum for presenting and discussing results from state-of-the-art experimental approaches (including optical spectroscopy, NMR spectroscopy, X-ray crystallography, XFELs, electron microscopy, atomic-force microscopy and scattering methods), and theoretical and computational methods to studying protein dynamics. The Les Houches – TSRC Protein Dynamics Workshop complements the long-standing TSRC Protein Dynamics Workshop, held every other year in the odd calendar years at the Telluride Science Research Center <http://www.telluridescience.org/> in Telluride, Colorado. In Les Houches, about 30 invited speakers will give oral presentations that comprise a pedagogic introduction to the methodology employed, followed by applications from their own work. Each 30-minute presentation will be followed by 15 minutes of discussion. In addition to the 30 invited speakers, there will be space for 30 student/postdoctoral participants that can present posters.Itsrelatively small number of participantsfavorsexchangeof ideasacross disciplines and fosteringofcollaborations.A few slots for oral presentations are still available. The Ecole de Physique des Houches can be conveniently reached from Geneva Airport(including the train station at the airport with direct connections to Zurich)by shuttle-bus service within 80 minutes . Please find details of the program at : https://www.sites.google.com/site/houches2018/ With best regards, Martin Weik -- Martin Weik Structural Protein Dynamics Research Team Institut de Biologie Structurale CAMPUS EPN 71 avenue des Martyrs CS10090 38044 Grenoble Cedex 9; France Phone:(33) 4 57 42 85 80 email: w...@ibs.fr http://www.ibs.fr/groups/dynamics-and-kinetics-of-molecular/structural-protein-dynamics/?lang=en
[ccp4bb] Les Houches/TSRC Workshop on Protein Dynamics, Chamonix Valley, May 27-June 1, 2018
Dear colleague, Registration is open for the Les Houches/TSRC Workshop on Protein Dynamics, to be held in Les Houches, close to Chamonix at the heart of the French Alps, from May 27 to June 1, 2018. This international workshop is a forum for presenting and discussing results from state-of-the-art experimental approaches (including optical spectroscopy, NMR spectroscopy, X-ray crystallography, XFELs, electron microscopy, atomic-force microscopy and scattering methods), and theoretical and computational methods to studying protein dynamics. The Les Houches – TSRC Protein Dynamics Workshop complements the long-standing TSRC Protein Dynamics Workshop, held every other year in the odd calendar years at the Telluride Science Research Center <http://www.telluridescience.org/> in Telluride, Colorado. In Les Houches, about 30 invited speakers will give oral presentations that comprise a pedagogic introduction to the methodology employed, followed by applications from their own work. Each 30-minute presentation will be followed by 15 minutes of discussion. In addition to the 30 invited speakers, there will be space for 30 student/postdoctoral participants that can present posters.Itsrelatively small number of participantsfavorsexchangeof ideasacross disciplines and fosteringofcollaborations.A few slots for oral presentations are still available. The Ecole de Physique des Houches can be conveniently reached from Geneva Airport(including the train station at the airport with direct connections to Zurich)by shuttle-bus service within 80 minutes . Please find details of the program at : https://www.sites.google.com/site/houches2018/ With best regards, Martin Weik -- Martin Weik, PhD Structural Protein Dynamics Research Team Institut de Biologie Structurale CAMPUS EPN 71 avenue des Martyrs CS10090 38044 Grenoble Cedex 9; France NEW Phone:(33) 4 57 42 85 80 NEW Fax:(33) 4 76 50 18 90 email: w...@ibs.fr http://www.ibs.fr/groups/dynamics-and-kinetics-of-molecular/structural-protein-dynamics/?lang=en
Re: [ccp4bb] Dehydration treatments
Dear Israel, there is also a dedicated humidity device developed at EMBL/ESRF Grenoble that allows for systematic dehydration experiments to be carried out at room temperature and soon at 4°C. Here is the primary reference: Sanchez-Weatherby, J., Bowler, M.W., Huet, J., Gobbo, A., Felisaz, F., Lavault, B., Moya, R., Kadlec, J., Ravelli, R.B. and Cipriani, F. (2009) Improving diffraction by humidity control: a novel device compatible with X-ray beamlines. Acta Crystallogr D Biol Crystallogr., 65, 1237-1246. Cheers, Martin Le 01/05/11 19:32, Israel Sanchez a écrit : Hi folks, I am currently impressed by the efficiency of dehydration treatments over the diffraction capacity of our crystals in one particular condition. Without any treatment the crystals seldom diffract to 20-30A but in our last synchrotron trip the very same crystals, after been incubated with increasing concentration of low molecular weight PEGs diffracted to 6A. I was wondering if anyone has studied these effects in a systematic way. Does anyone on the ccp4bb knows references or has any experience/pseudo-religious believes that do not care to share with the community about this particular topic? Thank you very much in advance -- Israel Sanchez Fernandez PhD Ramakrishnan-lab MRC Laboratory of Molecular Biology, Hills Road, Cambridge, CB2 0QH, UK
[ccp4bb] Grenoble: PhD fellowship in kinetic crystallography
A PhD studentship (3 years) is available at the Institut de Biologie Structurale (http://www.ibs.fr) in Grenoble, France. The project is to explore the structural dynamics of the medically important enzyme acetylcholinesterase by a panoply of complementary biophysical methods, including kinetic crystallography. During past decades, research in macromolecular biology focused mainly on structure-function relationships. Yet, only by taking into account the dynamic personality of macromolecules and by studying structure-dynamics-function relationships can we understand biological systems on the molecular level and in their cellular context. Acetylcholinesterase, being one of Nature's fastest enzymes, represents a major challenge concerning the study of its structural dynamics in the context of the enzyme's crucial role in cholinergic synapses. A particular focus will be on changes in the structural dynamics of acetylcholinesterase upon inhibitor binding. The results obtained will be exploited in a collaborative effort to improve existing anti-Alzheimer drugs that target acetylcholinesterase and to develop molecules capable of reactivating poisoned acetylcholinesterase. Biophysical methods applied include kinetic crystallography that films proteins in action, in crystallo spectrophotometry, and molecular dynamics simulations. The multidisciplinary project at the interface of biology, physics and chemistry will be conducted in an international environment. It will make extensive use of the nearby European Synchrotron Radiation Facility (http://www.esrf.eu) and its Cryobench laboratory (http://www.esrf.eu/UsersAndScience/Experiments/MX/Cryobench) dedicated to in crystallo spectroscopic studies complementary to X-ray crystallography. Candidates should preferably have a biophysical education. Applications, including two letters of reference, should be sent to Dr. Martin Weik (w...@ibs.fr). Representative publications • Colletier, Fournier, Greenblatt, Stojan, Sussman, Zaccai, Silman Weik (2006) Structural insights into substrate traffic and inhibition in acetylcholinesterase. EMBO J. 25, 2746. • Colletier, Bourgeois, Sanson, Fournier, Sussman, Silman Weik (2008) Shoot-and-Trap: use of specific x-ray damage to study structural protein dynamics by temperature-controlled cryo-crystallography. PNAS 105, 11742. • Xu, Colletier, Jiang, Silman, Sussman Weik (2008) Induced-fit or preexisting equilibrium dynamics? Lessons from protein crystallography and MD simulations on acetylcholinesterase and implications for structure-based drug design. Protein Sci., 17, 601. • Weik Colletier (2010) Temperature-dependent macromolecular X-ray crystallography. Acta D 66, 437. Press release related to the group's research on acetylcholienesterase • Observing a target enzyme of Alzheimer’s disease drugs in action. http://www.esrf.eu/news/spotlight/spotlight70/spotlight70/ • La cible de médicaments anti-Alzheimer observée en pleine action. http://www2.cnrs.fr/presse/communique/1392.htm?debut=64
Re: [ccp4bb] analytical ultracentrifugation
Dear Michael, For Analytical Utracentrifugation in Europe (among others): Steve Harding (NCMH Nottingham UK): [EMAIL PROTECTED] http://www.nottingham.ac.uk/ncmh/ German Rivas (CIB Madrid Spain): [EMAIL PROTECTED] http://www.cib.csic.es/en/servicio.php?iddepartamento=5 Christine Ebel (IBS Grenoble, France) (membrane proteins): Institute of Structural Biology ([EMAIL PROTECTED]) http://www.ibs.fr/content/ibs_eng/presentation/lab/lbm/ebel.htm For colloids: Helmutt Coelfen (MPI K GF) [EMAIL PROTECTED] http://www.mpikg-golm.mpg.de/kc/people/Coelfen/ or nanolytics (Germany): http://www.nanolytics.de/index.php?lg=enmain=auc. Best regards, Christine EBEL Institut de Biologie Structurale CEA-CNRS-UJF 41 rue Jules Horowitz, F-38027 Grenoble France Tel (33) (0) 4 38 78 95 70; Fax (33) (0) 4 38 78 54 94 [EMAIL PROTECTED] http://www.ibs.fr/content/ibs_eng/presentation/lab/lbm/ebel.htm Michael Colaneri a écrit : Dear colleagues, does anyone know of a faciltiy for analytical ultracentrifugation? Thanks. Mike Colaneri
Re: [ccp4bb] Primary literature for cyrocooling to mitigate radiation damage
Dear Andrew, The following paper actually measured the increase in lifetime offered to the crystal if data are collected at 100K instead of room temperature: Southworth-Davies, R. J., Medina, M. A., Carmichael, I. Garman, E. F. (2007) Observation of decreased radiation damage at higher dose rates in room temperature protein crystallography. Structure. 15, 1531-41. The gain in lifetime (factor of 26 - 113) is similar to the value (factor 70) estimated in: Nave, C. Garman, E. F. (2005) Towards an understanding of radiation damage in cryocooled macromolecular crystals. J Synchrotron Radiat 12, 257-60. Best regards, Martin Andrew Torelli a écrit : To the CCP4 community, I believe I have identified 2 appropriate citations for the use of cryocooling to mitigate the effects of radiation damage during a diffraction experiment. The first study is one that I have access to: Low, B. W., Chen, C. C., Berger, J. E., Singman, L. Pletcher, J. F. (1966). Proc. Natl Acad. Sci. USA, 56, 1746–1750. The second study is one that I cannot find text for: Blake, C. F. F. Phillips, D. C. (1962). Biological Effects of Ionizing Radiation at the Molecular Level, pp. 183–191. Vienna: IAEA. Could someone point me in the right direction to find this text? Alternatively, are there other citations that people use for the general use of cryocooling crystals in X-ray crystallography? Thank you for your time, Regards, -Andy Torelli
