SBGrid is adapting to times, transitioning our annual Symposium to a twice-weekly webinar series. Join us every Tuesday and Friday at 12pm ET to hear from developers and scientist about what's new in structural biology. Community members can connect via video, see some friendly faces during this time of social distancing, and directly ask questions of presenters. Be sure to subscribe to SBGridTV to receive alerts when we post new recordings and view our full collection of past tutorials.
Up next: Phenix
April 7th at 12pm EDT
Map Sharpening; Model Building; other cryo-EM tools in Phenix
Dorothee Liebschner
Computational Research Scientist
Berkeley Lab
Webinar connection instructions: We are now using Zoom to connect for webinars. Connection instructions:
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We've got a couple of operating system alerts for those of you looking to buy new computers or update existing Mac or Linux machines:
SBGrid is not compatible with MacOS 10.15 "Catalina without a work-around for recent filesystem changes", the next version of Apple's MacOS due out in October with significant changes. With Catalina, Apple will enforce strict filesystem controls that will break SBGrid installations. They have also dropped support for 32-bit binaries that many older applications require. We strongly recommend against upgrading to 10.15 on any Mac with SBGrid software. A solution is in the works, but it may take some time before we can fully implement the changes to officially support 10.15. We are also compiling a list of 32-bit software applications that will not …
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The evolution of SBGrid tracks with advances in structural biology, and cryo-EM is at the forefront of that change. This article reflects on 3 pivotal papers that describe key advances in cryoEM, from member laboratories and software contributors who were early participants in SBGrid. Read the full story.
Image caption: A clathrin cage with a single triskelion highlighted in blue. CryoEM map EMD_5119 was rendered in UCSF Chimera and one clathrin triskelion was highlighted. Image courtesy of Mazuraan CC BY-SA 4.0 license.
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Join us on May 22nd to hear from Giovanni Bussi from SISSA, Trieste and Massimiliano Bonomi, from the University of Cambridge, on Analyzing and enhancing molecular dynamics simulations with PLUMED.
Analyzing and enhancing molecular dynamics simulations with PLUMED
Tuesday, May 22nd at 12:00pm EDT
Giovanni Bussi -- Associate Professor, SISSA, Trieste, Italy
Massimiliano Bonomi -- Postdoc, University of Cambridge, Vendruscolo Group
Host: Jason Key
For more information on PLUMED, visit the website http://www.plumed.org/, browse the manual, check out Github: http://github.com/plumed, and read these publications:
- PLUMED: A portable plugin for free-energy calculations with molecular dynamics. [Abstract] (arxiv.org/abs/0902.0874)
- PLUMED 2: New feathers for an old bird. [Abstract] (arxiv.org/abs/1310.0980)
Webinar connection instructions: We are now using BlueJeans to connect for webinars. Connection instructions:
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Join us on November 14th to hear about the latest updates to EMAN2.2 from Baylor College of Medicine Professor, Steven Ludtke.
- EMAN2.2 for Single Particle Analysis and In-situ Structural Biology
Tuesday, November 14th at 12:00pm EST
Steven Ludtke, Ph.D.
Professor of Biochemistry - Baylor College of Medicine
Co-Director - National Center for Macromolecular Imaging
Co-Director - Center for Computational and Integrative Biomedical Research
EMAN2 has undergone dramatic changes in the last year, both in expanding its capabilities to in-situ (CryoET) segmentation and high-resolution high-speed subtomogram averaging, as well as with traditional single particle analysis. New deep-learning technology in EMAN2 permits automatic segmentation of cellular tomograms as well as highly accurate particle picking in single particle analysis. Even more recently, a novel computational approach based on robust invariants …
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