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![[Figure 4]](nz5018fig4mag.jpg)
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Figure 4
Near-predictive residues from AlphaFold2 predictions of eukaryotic translation initiation factor 3 and their experimentally solved counterparts. (a) Prediction of UniProt ID P60228 with standard pLDDT coloring from the Mol* viewer at the AlphaFold Database. (b) Prediction of UniProt ID P60228 with markup from our barbed_wire_analysis tool. The structure is primarily predictive (blue) and near-predictive (green), with the top-left helix an example of unpacked high pLDDT (gray). (c) Superposition of the prediction (black) with PDB entry 6zon chain E (pink), solved by cryoEM at 3.0 Å resolution. (d) Prediction of UniProt ID Q7L2H7 with standard pLDDT coloring. This prediction is lower confidence than (a). (e) Prediction of UniProt ID Q7L2H7 with markup from our barbed_wire_analysis tool. The structure is primarily near-predictive (green), with some unphysical (purple) regions. (f) Superposition of the prediction (black) with PDB entry 6zon chain M (pink). Even at low confidence, these predictions are close enough to the experimental structures to have structural meaning. The regions marked as unphysical, indicating severe validation outliers, correlate with loops omitted from the experimental structures. |
![[Figure 4]](nz5018fig4.jpg)
 | STRUCTURAL BIOLOGY |
ISSN: 2059-7983
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