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Our homology models indicate the electrostatic interactions and surface structures at the docking interface are key factors preventing Cx40 from docking to Cx43.
Moreover, we have studied the plasticity of the docking interface, as well as global changes in ubiquitin due to UIM binding at the picoseconds-to-nanoseconds and microseconds-to-milliseconds protein motions by nuclear magnetic resonance relaxation.
A paradox in protein protein binding is to explain how the unbound proteins of a binary complex recognize each other among a large population within a cell and how they find their best docking interface in a short timescale.
The ER β residues at the docking interface include a domain that is involved in dimerisation interface/polypeptide binding.
Five critical residues in Ang2 for Tie2 binding were all confirmed to take part in the docking interface of Seq15_12_35 and Ang2.
The residues of ER α that seemed to be part of the docking interface included a domain involved in the interaction with AKAP13 and the self-association and transactivation of the LBD region.
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CNK developed programs for computing the clustering results and analyzed protein docking interfaces.
YFC conducted the experiments, analyzed protein docking interfaces and helped to draft the manuscript.
It is noteworthy that protein dynamics predicted by ENM generally locate known catalytic residues and docking interfaces around vibrationally and rotationally inert regions, making efficient predictions of functional sites possible [ 75, 89, 100].
The α domain binds to elongin C and the β domain acts as the substrate-docking interface for targeting proteins [13].
All the operations that are force-field related are included in a specific module that is dynamically loaded in analogy to the docking software interfaces.
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