This seems to be due to more careful manual modeling as detected by more alternative conformations placed in binding sites and rotamer outliers identified in binding sites as having better density support.
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Our findings emphasize how we use PDB models. It is critical to understand that PDB models are just that, models. They do not fully explain the underlying experimental data, have nuances in how they are representing the data, and as we show, can vary in how well the underlying data is explained.
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