Combined affinity and rate constant distributions of ligand populations from experimental surface binding kinetics and equilibria.
The present article considers the influence of heterogeneity in a mobile analyte or in an immobilized ligand population on the surface binding kinetics and equilibrium isotherms. We describe strategies for solving the inverse problem of calculating two-dimensional distributions of rate and affinity constants from experimental data on surface binding kinetics, such as obtained from optical biosensors. Although the characterization of a heterogeneous population of analytes binding to uniform surface sites may be possible under suitable experimental conditions, computational difficulties currently limit this approach. In contrast, the case of uniform analytes binding to heterogeneous populations of surface sites is computationally feasible, and can be combined with Tikhonov-Phillips and maximum entropy regularization techniques that provide the simplest distribution that is consistent with the data. The properties of this ligand distribution analysis are explored with several experimental and simulated data sets. The resulting two-dimensional rate and affinity constant distributions can describe well experimental kinetic traces measured with optical biosensors. The use of kinetic surface binding data can give significantly higher resolution than affinity distributions from the binding isotherms alone. The shape and the level of detail of the calculated distributions depend on the experimental conditions, such as contact times and the concentration range of the analyte. Despite the flexibility introduced by considering surface site distributions, the impostor application of this model to surface binding data from transport limited binding processes or from analyte distributions can be identified by large residuals, if a sufficient range of analyte concentrations and contact times are used. The distribution analysis can provide a rational interpretation of complex experimental surface binding kinetics, and provides an analytical tool for probing the homogeneity of the populations of immobilized protein.
Svitel
Juraj
J
Division of Bioengineering & Physical Science, ORS, Office of the Director, National Institutes of Health, Bethesda, Maryland 20892, USA.
Balbo
Andrea
A
Mariuzza
Roy A
RA
Gonzales
Noreen R
NR
Schuck
Peter
P
D000465:Algorithms; D001665:Binding Sites; D015374:Biosensing Techniques / Q000379:methods*; D003198:Computer Simulation; D007140:Immunoglobulin Fab Fragments / Q000737:chemistry; D007700:Kinetics; D008956:Models, Chemical; D008958:Models, Molecular; D009113:Muramidase / Q000737:chemistry; D009211:Myoglobin / Q000737:chemistry; D009419:Nerve Tissue Proteins / Q000737:chemistry; D011485:Protein Binding; D011506:Proteins / Q000737:chemistry*; D013499:Surface Properties
C029152:G-substrate; D007140:Immunoglobulin Fab Fragments; D009211:Myoglobin; D009419:Nerve Tissue Proteins; D011506:Proteins; D009113:Muramidase