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(D ) For complexes in the benchmark set, inter-EC pairs with EVcomplex score ≥0.8 give predictions of interacting residue pairs between the complex subunits to varying accuracy (8 Å TP distance cutoff).
Our findings have shown that comparing the ranked lists of target genes results in plausible predictions of interacting TFs in human tissues.
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Prediction of interacting RNA structure can be considered as a kind of optimization problem in a sense that we seek to minimize the free energy of the joint structure or maximize a score such as an interaction probability under the possible topology of the interacting structure.
This domain is soluble and folded with approximately 60% α-helicity, in agreement with our predictions, and capable of interacting with several known Sec10p binding partners.
This kind of approach has been increasingly used and examples include predictions of species interacting as predator and prey (e.g. Redfern et al., 2006), animal and food plants (Preston et al., 2008; Schweiger et al., 2011, 2008), in resource competition (e.g. Meier et al., 2010b; Pellissier et al., 2012), in mutualism (e.g. Gutierrez et al., 2005) and facilitation (e.g. Heikkinen et al., 2007).
We provide a comprehensive analysis of our predictions against secondary structures of interacting RNA molecules drawn from the literature.
On the basis of some recent investigations, this paper is addressed to the prediction of the equilibrium energies of interacting conservative resonators and to a better understanding of the principle of energy equipartition for large undamped systems.
This provides an important means for the prediction of the interacting sites on protein with the ligand molecules.
Typically, these masses and their way of interacting with the floor mass are ignored in predictions of vibrational behaviour of the flooring system.
Hence protein localization prediction has implications both for the function of the protein and its possibility of interacting with other proteins in the same compartment [3,4].
Antigenicity and epitope prediction are also used to identify protein regions that have the greatest chance of interacting with the immune system.
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