The 2015 CryoEM Map and Model Validation Challenges

17-Jun-2015 2980 EMDB map entries 842 PDB EM coordinate entries

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Advisory Committee (current): EMDBAC 30 September 2010 Project Team Baylor College of Medicine Wah Chiu, PI Steven Ludtke Corey Hryc Grigore Pintilie Matthew Baker Matthew Dougherty Rutgers University Helen Berman, co-PI Catherine Lawson Raul Sala Brian Hudson John Westbrook European Bioinformatics Institute Gerard Kleywegt, co-PI Ardan Patwardhan Eduardo Sanz Garcia Ingvar Lagerstedt Matthew Conroy Advisory Committee (current): Paul Adams (chair), Richard Henderson, Bram Koster, Andrej Sali, Maryanne Martone

Project Goals In Collaboration with the 3DEM community: Establish data-validation methods that can be used during structure determination Define key indicators of a well-determined 3DEM structure Implement validation procedures for 3DEM maps and models in the deposition pipeline

Early Steps...See reprints in your folders EM Validation Task Force Henderson et al. (2012) “Standards for assessing Maps and Model fit into maps need to be developed.” 1st CryoEM Modelling Challenge Biopolymers Special Issue September 2012 3DEM Community-Supported Challenges Particle Picking (Zhu et al 2004) ; CTF (Marabini et al 2015)

3DEM Validation Report Development Model-only validation (as recommended by X-ray TF) has been implemented for 3DEM: Special concerns for 3DEM coordinate models: Polymer Trace Conformation (Cα, P) RNA conformation Clashes (e.g., from rigid body fits) 3J6B: EM structure of yeast large ribosomal subunit @ 3.2 Å report implemented and under internal review. we can include handouts of 3DEM validation reports in the folders for the advisors to review and comment.

Watch EMDataBank News for Details Challengers and Assessors FOR MAPS create/evaluate single particle reconstructions from seven benchmark datasets  FOR MODELS create/evaluate coordinate models from moderate to high resolution 3DEM reconstructions  Watch EMDataBank News for Details Wanted 3DEM GRC POSTER

The Map Challenge Committee: Bridget Carragher (Chair), Jose-Maria Carazo, Wen Jiang, John Rubinstein, Peter Rosenthal, Fei Sun, Janet Vonck Targets: Raw Datasets deposited at EMPIAR (PDBe)

The Map Challenge Anticipated Timing: Registration opens late June 2015 Challengers: reconstruction submissions* open July through December 2015 Assessors: open data assessment period commences early 2016 Results Workshop mid-2016 *committee-developed questionnaire with file uploads

The Model Challenge Committee: Targets & Timing: Paul Adams (Chair), Axel Brunger, Randy Read, Torsten Schwede, Maya Topf, Gerard Kleywegt Targets & Timing: To be determined at a committee workshop in June. Targets will be selected from recent maps in the 3-5 Ångstrom resolution range. The Model Challenge

The Model Challenge Possible targets: http://bit.ly/1L9v8VQ

Charge for Sunday