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

Lawson, Catherine; 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; Nguyen, Lisa; Schroeder, Gunnar; Shekhar, Mrinal; 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 (3.9 GB)
Name Size
BetaGalactosidase_mapA.zip
md5:0a6b92cf9a5cd24161a744cc4fcfd3c4
556.1 MB Download
BetaGalactosidase_mapB.zip
md5:8c8811fa9ed5b89d19ea357c10b7ec85
583.0 MB Download
BromeMosaicVirus.zip
md5:fd89a28b5a4cf35139c2abbe972a5729
423.1 MB Download
GammaSecretase_mapA.zip
md5:2ad544ec51f26f7ce214c2060c54597b
71.9 MB Download
GammaSecretase_mapB.zip
md5:d50f8f8d847c2516e9a96931fd6f2404
168.0 MB Download
GroEL.zip
md5:333ffb3a7e2f9f4d8347164bb519a478
369.5 MB Download
Model Challenge Web Contents Archive.pdf
md5:7bbeb8aef2c021850213fdc101aa4ce1
1.4 MB Download
model-challenge-workflow(1).xlsx
md5:9fe67a0638e20e8193598f1b832dc2ca
75.0 kB Download
Proteasome_mapA.zip
md5:a45c8dde469ce4852792783849e5168f
258.0 MB Download
Proteasome_mapB.zip
md5:abfb04a30466d5a565237e1d27a67509
410.3 MB Download
Ribosome_mapA.zip
md5:897e84caa43d9eabfc9458c723f3b3b1
31.9 MB Download
Ribosome_mapB.zip
md5:f597daf4c6109d40623b65f6496672f1
765.4 MB Download
TobaccoMosaicVirus.zip
md5:9dcc95b17d75f0efe3758feed706c23e
285.9 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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