Dataset Open Access

CryoEM Models and Associated Data Submitted to the 2015/2016 EMDataBank Model Challenge

Lawson, Catherine L.; Kryshtafovych, Andriy; Chiu, Wah; Adams, Paul; Brünger, Axel; Kleywegt, Gerard; Patwardhan, Ardan; Read, Randy; Schwede, Torsten; Topf, Maya; Afonine, Pavel; Avaylon, Jaycob; Baker, Matthew; Braun, Tatjana; Cao, Wei; Chittori, Sagar; Croll, Tristan; DiMaio, Frank; Frenz, Brandon; Grudinin, Sergei; Hoffmann, Alexandre; Hryc, Corey; Joseph, Agnel Praveen; Kawabata, Takeshi; Kihara, Daisuke; Mao, Binchen; Matthies, Doreen; McGreevy, Ryan; Nakamura, Haruki; Nakamura, Shugo; Nguyen, Lisa; Schroeder, Gunnar; Shekhar, Mrinal; Shimizu, Kentaro; Singharoy, Abhishek; Sobolev, Oleg; Tajkhorshid, Emad; Teo, Ivan; Terashi, Genki; Terwilliger, Thomas; Wang, Kevin; Yu, Iris; Zhou, Hong; Sala, Raul

Files and metadata associated with the EMDataBank/Unified Data Resource for 3DEM 2015/2016 Models Challenge hosted at challenges.emdatabank.org are deposited.

All members of the Scientific Community--at all levels of experience--were invited to participate as Challengers, and/or as Assessors.

Eight recently determined target structures were selected for the challenge. All of the maps were archived in the EM Data Bank (EMDB; http://emdatabank.org).

In total 16 Challengers created 106 models and uploaded their results with associated details.  In the zip files, each entry is represented in a folder containing the original deposition upload (deposited_EM.pdb), initial processing at RCSB/Rutgers (deposited_EM_edited.pdb, maxit.cif, maxit.cif.pdb) and final model version evaluated (model-compare.pdb) at UC Davis (http://model-compare.emdatabank.org).

This model challenge was one of two community-wide challenges sponsored by EMDataBank in 2015/2016 to critically evaluate 3DEM methods that are coming into use, with the ultimate goal of developing validation criteria associated with every 3DEM map and map-derived model.

 

The 2015/2016 Model Challenge was supported by the US National Institutes of Health / National Institute for General Medical Sciences (NIH/NIGMS) Under Grant Number R01 GM079429 to Wah Chiu (PI).
Files (6.2 GB)
Name Size
Model Challenge Web Contents Archive.pdf
md5:7bbeb8aef2c021850213fdc101aa4ce1
1.4 MB Download
model-challenge-workflow(1).xlsx
md5:9fe67a0638e20e8193598f1b832dc2ca
75.0 kB Download
T0001_TMV_mapA.zip
md5:3374cdb7c6ede0eb468cd267684a1a21
285.9 MB Download
T0002_Proteasome_mapA.zip
md5:71035df675a4b1cacaa4736583419f67
258.0 MB Download
T0002_Proteasome_mapB.zip
md5:11beef3c78d0959d03562dee29d1da46
410.3 MB Download
T0003_GroEL_mapA.zip
md5:bea13a766b50c33385dc7874c3bd297c
369.5 MB Download
T0004_TrpV1_mapA.zip
md5:50fe75c6dbc0b50b63e49a3e4fbe87e6
423.1 MB Download
T0005_BMV_mapA.zip
md5:e538d4cf518d1171f9fa044454fc4c01
1.0 GB Download
T0006_BetaGal_mapA.zip
md5:558c2f7649225695d604b04276338f9b
556.1 MB Download
T0006_BetaGal_mapB.zip
md5:70afa8554e1ed6b666b6018cd870c4ad
583.0 MB Download
T0007_GammaSec_mapA.zip
md5:4945266d01fc2be8b959aa4c03664e8c
71.9 MB Download
T0007_GammaSec_mapB.zip
md5:d2af04d7a651b4699175d9e9ffbc8555
168.0 MB Download
T0008_Ribosome_mapA.zip
md5:98d333c9625bdb2452775f5e131cec1a
1.3 GB Download
T0008_Ribosome_mapB.zip
md5:ce541e5b777f9281cf7662cb892fed33
765.4 MB Download
  • Henderson et al (2012) Outcome of the first electron microscopy validation task force meeting. doi:10.1016/j.str.2011.12.014
  • Lawson et al (2016) EMDataBank unified data resource for 3DEM. doi:10.1093/nar/gkv1126
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