Results for 5oyb
EMD-3860
Membrane mimetics: micelle; digitonin; solubilized by gentle agitation in buffer containing digitonin
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
* end0 around -20 3
0,10,50,90-110,270-290 end1 around 30 3
120-190,230,300-350 end1 around 35 3
Boundary values (averages for MemBlob)
| Z (PDBTM) | Z (MemBlob) | Z - 8 | |
| End1 | 13.25 | 32.11 | 24.11 |
| End0 | -13.25 | -23.00 | -15.00 |
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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