A model for hydrophobic protrusions on peripheral membrane proteins
Fig 3
On peripheral proteins (‘Peripheral’ dataset) protrusions in low density regions are more often hydrophobes compared to the ‘Non-binding surfaces’.
The plot shows the logarithm of the odds-ratio (Eq 10) comparing the frequency of hydrophobes on ‘vertex residues’ in peripheral proteins and non-binding surfaces. Positive values reflect higher frequencies in the peripheral proteins. The horizontal axis shows the protein density d around the protrusion, measured as the number of Cα and Cβ atoms within 1nm. Vertex residues are all on the convex hull, but only the vertex residues with d < 22 are protrusions. The leftmost bar with d < 7 corresponds mostly to chain terminals. More precisely, the vertical axis shows where A denotes the dataset ‘Peripheral’, B the ‘Non-binding surfaces’, l and u denote the lower and upper limits of the ranges given on the vertical axis, and d is the local protein density defined in ‘Materials and methods’. Error bars are 95% confidence intervals.