MetricSasa(sel='protein', filtersel='all', probeRadius=1.4, numSpherePoints=960, mode='atom')¶
Calculate solvent accessible surface area of a molecule.
Implementation and documentation taken from MDtraj shrake_rupley code.
filtersel (str) – Keep only the selected atoms in the system. All other atoms will be removed and will not contribute to the SASA calculation. Keep in mind that the SASA of an atom or residue is affected by the presence of other atoms around it so this will change the SASA of the remaining atoms.
probeRadius (float) – The radius of the probe, in Angstrom.
numSpherePoints (int) – The number of points representing the surface of each atom, higher values lead to more accuracy.
mode (str) – In mode == ‘atom’, the extracted areas are resolved per-atom. In mode == ‘residue’, this is consolidated down to the per-residue SASA by summing over the atoms in each residue.
Returns the description of each projected dimension.
Molecule object) – A Molecule object which will be used to calculate the descriptions of the projected dimensions.
map – A DataFrame containing the descriptions of each dimension