Results for 5is0

PDB: 5is0 Gene name: Trpv1 UniProt: TRPV1_RAT EMD: emd_8119.gz
EMD-8119

Membrane mimetics: nanodisc; protein:2N2/1E3:soybean lipid; protein:2N2/1E3:soybean lipid; proteins (p) solubilized in DDM were mixed with soyabean lipids and MSP

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

340 end0 around -20 5

Boundary values (averages for MemBlob)

	Z (PDBTM)	Z (MemBlob)	Z - 8
End1	11.75	27.28	19.28
End0	-11.75	-20.78	-12.78

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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