Portal:Erice2008
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The Erice Crystallography 2008 meeting will be held May 29 to June 8 2008. The main page for this meeting is crystalerice.org. The present page contains information about workshops, IT support, info for speakers and workshop leaders, and information about the virtual course. This page was originally created in Feb08, and underwent major revision around April 16-20 to reflect near-final scheduling information. We reserve the right to move workshops around depending on circumstances. We will do our best to accommodate as many people as possible. We hope you enjoy the workshops.
Workshop signup is self-service only. Please do not email us about signing up for workshops. To signup, you must register on the wiki. Look in the top right corner for Login/Create user to register.
Workshop Overview
There will be 12 different workshops, held in seven locations over 5 days. Some workshops have strict enrollment limits (due to computers, space, or other restrictions) while others are open to all. The workshops are :
| Number | Name | Leaders | Summary |
|---|---|---|---|
| 1 | CCP4 | Winn and Potterton | CCP4 is a large software suite covering all aspects of protein structure determination by X-ray crystallography. We will not be able to cover all aspects of CCP4, but rather will focus on a small selection of stages in structure determination, illustrating some recent additions to the software suite. more information |
| 2 | EBI tools | Watson | The European Bioinformatics Institute offers many tools and databases that can help with a structure based ligand discovery project. This workshop takes you through some cases that you might not know about. more information |
| 3 | GRID | Cruciani | GRID is a program for assaying the binding site computationally. This workshop takes you through how to use GRID for ligand discovery. more information |
| 4 | CCDC tools for mining Structural Databases | Liebeschuetz and Carlqvist | The Cambridge Crystallographic Data Centre offer tools for mining the the Protein Data Bank (PDB) and the Cambridge Structural Database (CSD) of small organic molecule crystal structures. This workshop takes you through some worked examples of how you can use Relibase+ and the Cambridge Structural Database System to help in protein/ligand model analysis and solving problems in bioactive ligand design. more information |
| 5 | Crystallization | Baker and Bergfors | This workshop takes you through the process of crystallization and inspecting those crystals under a microscope. more information |
| 6 | DMPK | Cruciani | This workshop takes you through hands on calculations of DMPK using various methods. more information |
| 7 | PDB | Rose | The PDB is the database of protein structures. You can do so much more than just get protein structures. This workshop shows you some of the many features you might not know about. more information |
| 8 | MAIN | Turk | MAIN is a general purpose crystallography workbench. more information |
| 9 | MODELLER | Sali | This workshop introduces Modeller, a program for comparative model building of protein structures, and modbase, a database of comparative models. more information |
| 10 | Proteopedia | Sussman and Hodis | This workshop introduces an intuitive --better-- way to communicate three-dimensional structural information to both structural biologists and non-structural biologists. Proteopedia is a free and collaborative, intuitively 3D encyclopedia of proteins, RNA, DNA, and their assemblies and interacting small molecules with emphasis on three-dimensional structure where relevant to function. See www.proteopedia.org and click on the green links for a better understanding. more information |
| 11 | Virtual Screening with DOCK and ZINC and SEA | Irwin and Shoichet | This workshop introduces two technologies for ligand discovery: target-based virtual screening (using DOCK) and ligand-based virtual screening (using SEA). The workshop will focus on reviewing hits suggested by these two methods, and picking compounds for purchase and test. more information |
| 12 | TTP Crystallization Robotics | Wheatcroft | This is a demonstration of a crystallization robot from the company TTP. For more information, see their webpage ttplabtech.com. |
Workshop Schedule and Signup
Workshops will be held in seven venues: Madonna Room, Tower Room, San Domenico, Feynman Hall, Library, the Crystallization Room and the Lavoratorium over five days. They start promptly at 2.30 pm and last two hours. You may sign up for workshops before you get to Erice using this informal Wiki system. Since there are twelve different workshops and only five slots, you'll have to choose! Moreover, we expect at least 165 participants, yet many workshop sessions ("hands on", "crystals") can only accommodate 12 participants, to maintain a two students per computer ratio with six computers per room. By putting this schedule on the web early (Feb '08), we hope to gauge relative interest in the workshops, and thereby update the plan to make better use of scarce resources in Erice. Put another way, if you sign up now, we'll see where we need to tweak the program, and we should be able to make efficient use of our time in Erice. Should you have any questions, please write to support at crystalerice.org. (Organizer note: We may use San Francesco instead of the Library). In case of over-subscription of the workshops, those who have signed up for fewer workshops will get priority over those who have signed up for more. You may put your choice number after your name, thus John Irwin (#1) is read: This is John Irwin's first choice. Abusers of this "honor system" sign up process will enjoy the karma they have earned. Note that there are no enrollment limits on the "watch me" workshops.
| A. Sat May 31 | Z. Sat May 31 #2 | B. Sun Jun 1 | C. Tue Jun 3 | D. Wed Jun 4 | E. Fri Jun 6 | |
|---|---|---|---|---|---|---|
| Madonna - 6 Windows, hands-on | CCDC | CCDC | EBI | DMPK | GRID | CCDC |
| Tower, 6 Linux, hands-on | PDB | GRID | GRID | Proteopedia | CCP4 | TBA |
| Feynman, 1 Linux, watch-me | DOCK | CCP4 | MODELER | CCP4 | MAIN | TBA |
| Library, 6 Linux, hands-on | CCP4 | MODELER | DOCK | DOCK | MODELER | MAIN |
| San Domenico, 1 Windows, watch-me | Proteopedia | DOCK | CCDC | PDB | EBI | DMPK |
| Crystallization Room, no computers | Crystallization | Crystallization | Crystallization | Crystallization | Crystallization | Crystallization |
| Lavatorium, no computers | N/A | N/A | N/A | N/A | Cryst. Robotics | N/A |
Computer Information
There will be about 20 computers, which will be used for workshops, divided into three rooms of 6 (for hands on) and 2 rooms of 1 (for lectures). They will be available for an "internet cafe" at all times other than during workshops. You are welcome to bring a laptop, which you may connect to the Internet via wired or wireless connections. There are two black and white printers in the Madonna room, and a color printer on request. There is wireless in the lecture hall, but please do not disturb those around you.
Information for speakers and workshop leaders
Please test drive your presentation during coffee break, preferably 24 hrs before your talk. You may use your own laptop, or bring a usb drive and put your talk on the podium computer. Workshop leaders should contact podium at crystalerice.org asap so we can make sure your workshop will run smoothly. We have bright green lasers with powerpoint buttons built in. If you can give us enough warning, we can often accommodate any reasonable request that benefits the quality of your presentation, and the meeting.
Virtual Course
We will record and broadcast all lectures. We are asking all speakers to deposit powerpoints 24 hours before they speak (PDF of a PPT or PPT format). These will be provided as a study aid, both to students present and on the web. They will also form part of an educational DVD record of the meeting. We will not charge for this DVD. The DVD may also include workshop materials and other meeting-related resources, and will be available after August 2008. If you wish to opt out of the virtual course, no problem, just let us know. If we do not hear from you, we will assume you are participating.
Recent changes
- April 16 - The workshop scheduled Fri June 6 in the Library has been changed from CCP4-E to DOCK-E. If you signed up for this, your request has been cancelled.
- April 20 - Some other workshops have been reorganized. If you signed up, please check as your registration may have been dropped. We will try not to do this too much!
- April 23 - MAIN workshops were swapped with DOCK workshops. If you signed up for either, your registration may have been lost. Please check!
- May 2 - Crystallization Robotics only on the 4th now. People signed up for the 3rd were moved to the 4th. Hope that's ok!
- May 27 - a 6th workshop period "Z" was added on Sat May 31 5pm. This attempts to compensate for over subscription of some workshops. As of May 27 there are still two "TBA - to be announced" workshops. Stay tuned.
