I have downloaded a predicted structure from AlphaFold as a pdb file (https://alphafold.com/entry/O75376) and loaded it into Pymol (2.3.0). There is quite a large portion of the structure that was modelled with very low confidence (pLDDT < 50). Is there a way to select these regions in the structure so that I can assign a different representation to them? Thank you.
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2 Answers
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Answer from @matteo-ferla, converted from comment:
They are stored as b-factors. This is well described in the PyMol wiki.
[please edit to improve this answer, if possible]
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use: Spectrum b, Red_white_blue
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$\begingroup$ It is not clear what this means. $\endgroup$ Commented Jul 22, 2022 at 17:04