PISA's interface area is 1/2 of sum BSAs for the interfacing structures. If you go to interface details, you also get total area of structures and their individual BSAs. The latter I should think would be an overinterpretation if used.
Eugene. On Wed, May 26, 2010 at 1:45 PM, Sollepura Yogesha <[email protected]> wrote: > Dear All, > > I am trying to calculate BSA (Buried surface area) for a protein complex. I > am using CCP4 AreaIMol. > I used Accessible surface area module and calculate areas for " protein > atoms only" > > I know that the buried surface area (BSA) can be calculated as: BSA = ASA(A) > + ASA(B) - ASA(AB) when two proteins A and B form a complex AB > > So when I run areaIMol for complex AB using AB.pdb, I get > Total area of chain A > Total area of chain A > Total area > Total contact area of chain A > Total contact area of chain A > Total contact area > > So, > How do I get my BSA? > Do I need to split PDB in to individual chains to get Accessible surface area > for each chain [ ASA(A) and ASA(B)]? > Is the total area I got above is the ASA (AB)? > Are there are any applications which could help get BSA > PISA server giver ASA for each interface and total, so how could I use them > to calculate BSA? > > Thanks in advance > Yogi >
