Results for 5vms

PDB: 5vms Gene name: CALM2 UniProt: CALM2_HUMAN EMD: emd_8712.gz
EMD-8712

Membrane mimetics: micelle; DDM/CHS


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

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Boundary values (averages for MemBlob)


Z (PDBTM) Z (MemBlob) Z - 8
End1 14.75 25.33 17.33
End0 -14.75 -23.06 -15.06

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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