Results for 3jad

PDB: 3jad Gene name: glra1 UniProt: GLRA1_DANRE EMD: emd_6344.gz
EMD-6344

Membrane mimetics: micelle; DDM

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))
[ Download results Resubmit ]

Manual settings applied

0,10,50-80,120-150,190-220,340,350 end1 around 25 10
20-40,90-110,160-180,310-330 end1 around 40 10

Boundary values (averages for MemBlob)

	Z (PDBTM)	Z (MemBlob)	Z - 8
End1	17.75	37.78	29.78
End0	-17.75	-30.94	-22.94

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
[ Download results Resubmit ]