In a similar manner, the case in which all binding sites are equivalent [ 7] can be seen as a special case, in which there is only one sub-group of identical binding sites.
Cadmium-mycophosphatin has an isoelectric point less than pH 2, binds cadmium with a dissociation constant of KD = 1.59 X 10 M (pKD = 6.8) and is saturated with 13.5 mole Cd/mole, all Cd-binding sites being equivalent.
The increased apparent dimerization constant imparted by adding a second equivalent binding site is of significant importance to development of allosteric regulators, and is expected to be present in the intact receptor as well as the LBD (see SI).
Our MD simulations and MM-PBSA calculations suggest that the two K+ binding sites are not equivalent and the lower binding site is energetically favorable.
In both cases, the binding site is not inside the channel cavity and thus there are six equivalent binding sites due to the six-fold symmetry of the p7 channel.
Strikingly, this binding site is denoted by strong drug density and, also since the R6G binding affinity and induction capabilities of QacR(E90Q) are equivalent to those of wt QacR, this demarks a second physiologically functional and isoenergetic binding site for R6G.
Otherwise, this binding site is regarded as an incorrectly predicted binding site.
On the other side of the spectrum, when networks are not sparse, and the spontaneous gain rate of binding sites is relatively equivalent to their loss rate, selecting on a specific pathway function does not affect regulatory complexity.
However, in yeast similar sequences to the binding site are found in the equivalent positions.
