Results for 5x0m

PDB: 5x0m Gene name: UniProt: SCNA1_PERAM EMD: emd_6698.gz

Membrane mimetics: micelle; Digitonin Note: More manual adjustment needed because of the noise level

Cross-sections at different angles

green: density, gray dots: atoms from the all-atom model, lines: membrane boundaries defined by TMDET

The determined edges at each slice and their comparison to TMDET

dots: edges of the gradient, triangles: outliers,
dashed and solid lines: membrane boundaries defined by TMDET and MemBlob ( mean(Zi) decreased by the thickness of the interface region (8 Å))
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Manual settings applied

0-80,260-350 end0 around -25 5
80-90 end0 around -20 5
110,120 end0 around -23 3
130-250 end0 around -35 5
* end1 around 25 5
70,80 end1 around 20 3
160-180 end1 around 17 3
250 end1 around 17 3

Boundary values (averages for MemBlob)

Z (PDBTM) Z (MemBlob) Z - 8
End1 14.00 24.50 16.50
End0 -14.00 -32.72 -24.72

Mapping the results to the structure

You can move/scale/rotate the structure. Blue: a.a. facing to bulk water; magenta: interface region; green: a.a. interacting with the hydrophobic membrane core; yellow: burried a.a. red: a.a. with an invisible side chain and non-protein molecules, for which DSSP cannot return SASA
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