Poisson-Boltzmann calculations of nonspecific salt effects on protein-protein binding free energies.
The salt dependence of the binding free energy of five protein-protein hetero-dimers and two homo-dimers/tetramers was calculated from numerical solutions to the Poisson-Boltzmann equation. Overall, the agreement with experimental values is very good. In all cases except one involving the highly charged lactoglobulin homo-dimer, increasing the salt concentration is found both experimentally and theoretically to decrease the binding affinity. To clarify the source of salt effects, the salt-dependent free energy of binding is partitioned into screening terms and to self-energy terms that involve the interaction of the charge distribution of a monomer with its own ion atmosphere. In six of the seven complexes studied, screening makes the largest contribution but self-energy effects can also be significant. The calculated salt effects are found to be insensitive to force-field parameters and to the internal dielectric constant assigned to the monomers. Nonlinearities due to high charge densities, which are extremely important in the binding of proteins to negatively charged membrane surfaces and to nucleic acids, make much smaller contributions to the protein-protein complexes studied here, with the exception of highly charged lactoglobulin dimers. Our results indicate that the Poisson-Boltzmann equation captures much of the physical basis of the nonspecific salt dependence of protein-protein complexation.
Bertonati
Claudia
C
Howard Hughes Medical Institute, Center for Computational Biology and Bioinformatics and Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA.
Honig
Barry
B
Alexov
Emil
E
D001665:Binding Sites; D003198:Computer Simulation; D019281:Dimerization; D008956:Models, Chemical; D008958:Models, Molecular; D046912:Multiprotein Complexes / Q000737:chemistry* / Q000648:ultrastructure; D011485:Protein Binding; D011506:Proteins / Q000737:chemistry* / Q000648:ultrastructure; D012492:Salts / Q000737:chemistry*; D055672:Static Electricity
D046912:Multiprotein Complexes; D011506:Proteins; D012492:Salts