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The contour level is at ±7 kT e−1.
The contour level of the cryo-EM density for the lipids is 4σ.
The contour level of the cryo-EM density for TM2 and TM6 of PS1 is 5σ.
A lower contour level of map 2 is shown in transparency and locally filtered in Relion47.
At the contour level commonly used for atomic modelling, the potential nucleotide densities in the apo-like subunits mostly disappear, although they can appear as partial nucleotide shapes at a much lower contour level.
f, The local cryo-EM density map for the extracellular loop of Notch-100 (the contour level is 8σ).
The contour level of the cryo-EM density is 5σ for a and b and 6σ for c.
The contour level of the cryo-EM density is 8σ, except where specifically stated in a and c.
This is an electron density isosurface at the same contour level as what we were looking at for AlCl three.
So as long as the contour level is > 7.75e-18, you won't get the frame/exclude behavior.
g, The local cryo-EM density map for the crosslinking site between PS1 loop 1 and the extracellular loop of Notch-100 (the contour level is 6σ).
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Justyna Jupowicz-Kozak
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