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Seven feasible complexes were found when docking the TrNOE structure with R* and none with R. The analog peptides were modeled into the complexes, and their binding affinities were calculated.
Relative binding affinities were calculated from these studies indicating that binding affinity for FR of fluoro-PEG-folate is 1.8-fold lower than that of folic acid, but 3-fold higher than that of 5-Me-THF.
Binding affinities were calculated using Graphpad Prism 5 software [68].
Binding affinities were calculated from this 200-pose cluster using a ChemScore Fitness function.
Binding affinities were calculated as the kinetic dissociation rate constant divided by the kinetic association rate constant.
Similar(54)
To investigate whether FK-A11 interacts with PI3K similar to FK228 and FK-A5, Chemgauss 4 scores that indicate the intensity of the binding affinity were calculated in computational docking simulations.
The binding affinity was calculated as −9.59 kcal/mol by AutoDock; the Ki value was 94.12 nanomolar.
The binding affinity was calculated at −8.9 kcal mol−1.
(B ) The binding affinity was calculated at −8.9 kcal mol−1.
The approximate binding affinity was calculated as in eq 7 (see Methods).
Since the difference in binding affinity is calculated and fully accounted for, significant dissimilarities can be tolerated.
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