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This is expected for cooperative processes with many interaction sites involved.
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Many bacterial sRNA genes and their mRNA interaction sites are conserved in closely related bacteria (see e.g. Delihas, 2003; Udekwu et al., 2005).
The inhibitors in its reference complexes are relatively large, highly potent, exhibit many interactions with the binding site and additionally share quite similar binding modes with a good overlap of functional groups (Fig. 3d).
This is important because, from a physiological standpoint, it is primarily how the collagen triple-helices are packed in a microfibril relative to one another that dictates the location and accessibility of its many biologically active ligand interaction sites [62].
TyrSA is engaged in many interactions with active site residues occupying the tyrosine and adenine binding pockets.
Furthermore, many of these proteins contain multiple disorder-based protein interaction sites.
Many of these sites are also excluded as non-specific interaction sites, likely reflecting their hydrophobic nature.
Bioinformatic analysis revealed that the excluded sequence encodes as many as 6 putative CDK phosphorylation sites and 2 cyclin interaction sites (CY motifs).
Many target proteins interact with a number of different partners and may possess multiple interaction sites.
The interaction sites are indicated by asterisks.
In this article we look at Kirkwood Buff integrals computed using thermodynamic averages derived from grand canonical ensemble molecular dynamics simulations and compare them to similar quantities derived from the dielectrically consistent reference interaction site model many-body theory.
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