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It contains various organic compounds (lignin, cellulose and hemicellulose) with poly phenolic groups that might be useful for binding dyes through different mechanisms.
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This domain has about 60 amino acids and is useful for binding DNA sequences (Magnani et al 2004).
We further probed quinate and shikimate binding using WaterLOGSY NMR, a technique previously shown to be useful for detecting binding of small molecules to large protein complexes.
The energy model is general enough that it can be applied to other members of the SH2 family or to new peptides, and the cross-validation results suggest that these energy calculations will be useful for predicting binding interactions.
We believe that iMatrix and our template-based method can be useful for the binding mechanisms of TCR-pMHC complexes and peptide vaccine designs.
The preference of amino acid residue pairs obtained in the present work will be useful for predicting the binding sites of RNA binding proteins.
Comparison with phage display and other experimental data suggests that the peptide extension approach recapitulates naturally occurring peptide binding specificity better than fixed backbone design, and that it should be useful for predicting peptide binding specificities from crystal structures.
Our data indicate that DO-RIP-seq will be useful for quantifying RBP binding events that regulate dynamic biological processes.
A number of additional information sources can be useful for predicting TF binding.
While the above methods are largely dependent on sequence-based measures of evolutionary information, structural conservation has also been shown to be useful for distinguishing protein binding sites [ 31, 160, 181, 182] and even general functional sites [ 183].
Our analysis gives detailed information about the principles involved in the conformational stability of penicillin binding proteins and the results will be useful for researchers exploring penicillin binding proteins.
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