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![[Figure 5]](ir5011fig5mag.jpg)
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Figure 5
Map improvement using density modification and using density modification with ensemble models. Six cryo-EM maps were density-modified as in Fig. 4 ![[link]](../../../../../../logos/arrows/d_arr.gif) and the correlation between each map and model-based density was calculated as described in the text. The maps and models were EMDB EMD-7573 and PDB entry 6crv, 3.2 Å resolution (Kirchdoerfer et al., 2018); EMDB EMD-7544 and PDB entry 6coy, 3.4 Å resolution (Park & MacKinnon, 2018); EMDB EMD-3837 and PDB entry 5ood, 3.7 Å resolution (Merino et al., 2018); EMDB EMD-3805 and PDB entry 5ogw, 3.8 Å resolution (Pospich et al., 2017); EMDB EMD-8200 and PDB entry 5k47, 4.2 Å resolution (Grieben et al., 2017); EMDB EMD-7582 and PDB entry 6cs2, 4.4 Å resolution (Kirchdoerfer et al., 2018). Map–model correlations for the initial maps are shown with blue plus signs, those for the density-modified maps are shown with orange squares and those for maps density-modified with ensemble models are shown with black circles. Map–model correlations (CCmask) were obtained with the Phenix tool map_model_cc (Afonine, Klaholz et al., 2018; Liebschner et al., 2019). Correlations were obtained using deposited models after setting the atomic displacement parameters (B values) of all the atoms in the models to zero, a procedure that has previously been shown to yield a useful metric of map quality (Terwilliger et al., 2018). This procedure also has the advantage here of removing bias in the model favoring the deposited map. The resolutions used for map–model correlations are the resolutions that were used in density modification. |
![[Figure 5]](ir5011fig5.jpg)
 | STRUCTURAL BIOLOGY |
ISSN: 2059-7983
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