Results for 5wj5

PDB: 5wj5 Gene name: MCOLN1 UniProt: MCLN1_HUMAN EMD: emd_8840.gz

Membrane mimetics: micelle; LMNG or Digitonin Note: Blobs from non-resolved protein regions at side0 made auto-detection problematic

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 -25 3

Boundary values (averages for MemBlob)

Z (PDBTM) Z (MemBlob) Z - 8
End1 16.50 18.28 10.28
End0 -16.50 -27.67 -19.67

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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