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Model Challenge Targets
The eight targets chosen by the model challenge committee are shown below. All are based on recently reported 3DEM structures. The target order is according to unique molecular weight, from 19 kDa (TMV) at left to 2500 kDa (ribosome) at right. For challenge rules and additional information about each target see the model challenge guide.
April 28: Corrected symmetry center info and BIOMT matrix files for the proteasome and beta-galactosidase targets, see the model challenge guide.
May 3: Corrected BIOMT matrix file containing Icosahedral transformations for Brome Mosaic Virus, see the model challenge guide.
Target Map Download: You can use this rsync script to download target maps from one of three wwPDB ftp sites. Alternately, you can download individual maps from EMDB atlas pages (click on EMDB entry link in the table below, select "download" tab).
| 1. Tobacco Mosaic Virus | 2. T20S Proteasome | 3. GroEL | 4. TRPV1 Channel | 5. Brome Mosaic Virus | 6. β-Galactosidase | 7. γ-Secretase | 8. 70S Ribosome | |
|
target |
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| Map "A" EMDB entry Primary Citation Reported Resolution (Å) |
EMD-2842 Fromm et al 3.3 |
EMD-5623 Li et al 3.3 |
EMD-6422 -- 4.1 |
EMD-5778 Liao et al 3.3 |
EMD-6000 Wang et al 3.8 |
EMD-5995 Bartesaghi et al 3.2 |
EMD-2677 Lu et al 4.5 |
EMD-2847 Fischer et al 2.9 |
| Reference Model(s) Map "A" |
4udv (EM) 1ei7 (Xray) |
1yar (Xray) 3j9i (EM) |
3cau (EM) 1ss8 (Xray) 1svt (Xray) |
3j5p (EM) |
3j7l (EM) 1js9 (Xray) |
3j7h (EM) 1jz7 (Xray) |
4upc/superceded by 5a63 (EM) | 5afi (EM) |
| Map "B" EMDB entry Primary Citation Reported Resolution (Å) |
EMD-6287 Campbell et al 2.8 |
EMD-2984 Bartesaghi et al 2.2 |
EMD-6316 Li et al 3.6 |
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| Reference Model(s) Map "B" |
1yar (Xray) |
5a1a (EM) 1jz7 (Xray) |
5a63 (EM) |
3ja1 (EM) | ||||
|
Imposed Map Symmetry |
Helical |
Dihedral (D7) |
Dihedral (D7) |
Cyclic (C4) | Icosahedral (I) | Dihedral (D2) | None (C1) | None (C1) |
| Sample MW (MDa) | -- | 0.7 | 0.8 | 0.3 | 4.6 | 0.47 | 0.17 | 2.5 |
| Unique MW (kDa) | 19 | 50 | 56 | 80 | 80 | 120 | 170 | 2500 |
| Map Contributors (Thank You!) | Simon Fromm, Carsten Sachse |
Jean-Paul Armache, Yifan Cheng Melody Campbell, Bridget Carragher |
Soung-Hun Roh, Corey Hryc, Wah Chiu | Jean-Paul Armache, Maofu Liao, Yifan Cheng | Zhao Wang, Wah Chiu | Alberto Bartesaghi, Sriram Subramaniam | Xiaochen Bai, Sjors Scheres |
Niels Fischer, Holger Stark Wen Li, Zheng Liu, Joachim Frank |
EMDataResource Validation Challenges are supported by NIH National Institute of General Medical Sciences
Please send your challenge questions, comments and feedback to challenges@emdataresource.org
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