News

Clarification about symmetry of the GroEL simulated data

The authors of the GroEL simulated dataset have asked us to let all map challenge participants know that 4HEL, the model from which the images were generated, is non-symmetrical, owing to unmatched crystallographic symmetry (P212121).   They have just become aware of this issue following discussion with two challenge participants.

Challenge Submissions Update

The following updates have been made to the challenges site this week:

  1. Model challenge submissions are now open.
  2. Challenge submissions (both map and model) now require login to the challenges site.  Emails have been sent out to all challenger registrants with their login information.
  3. Challenge news is now available via rss feed.

A note about BMV image frame data

Some map challenge participants may be encountering difficulty processing the BMV individual frames data (not the original boxed out particle images). One has to work out the image processing scheme which is a part of the challenge. To help challengers understand the data, the BMV raw data providers have provided the following note:

New Publications

New open access articles about EMDataBank and EMDB access are now available online, in advance of publication in the upcoming January 2016 Nucleic Acids Research Database Issue.

Pages

Map Challenge

June 2017: The Blind Assessment Phase has ended and full submission data are now available.  Please visit the map challenge page for more details.

Model Challenge

The Assessment Phase for the 2015/2016 Model Challenge is open. Please visit the model challenge page for more details.

Welcome

 Three-dimensional Electron Microscopy (3DEM) is becoming a key experimental method in Structural Biology. Recent advances in image acquisition and processing are yielding more structures determined at near-atomic resolution, as well as a wide range of macromolecular complexes and subcellular architectures determined at lower resolution.

 

A major goal of the EMDataBank team is to work with the 3DEM community to establish data validation methods that can be used in the structure determination process, define key indicators of a well-determined structure that should accompany every structure deposition, and implement appropriate validation procedures into a 3DEM validation pipeline. Following recommendations of the EM Validation Task Force (Henderson et al 2012), we are hosting new benchmark challenges here, with aim to stimulate further community discussions about validation procedures for 3DEM maps and map-derived models. Prior community-organized 3DEM challenge activities have included a Particle Picking Challenge (Zhu et al 2004),  CryoEM Modeling Challenge (Ludtke et al 2012), and CTF Challenge (Marabini et al 2015).

EMDataBank Validation Challenges are supported by NIH National Institute of General Medical Sciences

Please send your challenge questions, comments and feedback to challenges@emdatabank.org

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