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Major binding interactions were found to be of dispersion type (residues Tyr158, Ile215, Met103 and Met199) and a hydrogen bond with Tyr158.
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Indeed, all copies of the complex obtained in the structures from both species superimposed well and exhibited the same four major groups of binding interactions as described for the D. rerio structure.
Two major binding modes for the SSB−DNA interaction have been described.
However our initial conclusion that the two "π-π" interactions were the major binding forces appeared to be incorrect, since the mutation of these hydrophobic residues to Ala had only a small impact on the affinity for CCL3 (Fig. 9b).
Identifying the actual selective pressures against non-specific binding in a cell is a daunting task, but the number and nature of binding decoys is a major determinant of the ease of evolving new binding interactions.
To address how Noxa induction activates apoptosis, we therefore have investigated the interaction of Noxa with its major binding partner Mcl-1 (Chen et al, 2005).
Of all the MBP structures solved to date, Kaiso appears to be the only one that utilizes both major and minor groove interactions to confer high-affinity binding interactions.
MD simulations can qualitatively characterize major binding sites of monovalent ions that are primarily determined by electrostatic interactions.
The in silico predicted interaction between staurosporine and synapsin I was tested by in vitro experiments aimed at analyzing the ability of staurosporine to competitively inhibit ATPγ35S binding to synapsin I [53], [54] or to affect the interactions of synapsin I with actin which occur through a major binding site in domain C [71], [72], [73].
This result indicates that LSD1, CoREST, and HDAC1/2 are major binding proteins of ZNF198 in human cells and confirms earlier findings that have demonstrated the interactions between the LCH complex and proteins containing MYM zinc fingers.
Cell surface receptor interactions with their ligands often involve hydrophobic contact points which provides the major binding energy.
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