POPS* (Parameter optimized surfaces) is a fast algorithm to calculate solvent accessible surface areas (SASAs) of proteins and nucleic acids at atomic (default) and residue (coarse-grained) level. Atomic and residue area parameters have been optimised versus an accurate all-atom method (Naccess). Residue areas (coarse-grained) are simulated with a single sphere centered at the C-alpha atom for amino acids and at the P atom for nucleotides.
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Fraternali, F. and Cavallo, L.,
Parameter optimized surfaces (POPS): analysis of key interactions and conformational changes in the ribosome.
Nucleic Acids Research 30 (2002) 2950-2960