10.1038/srep43727 4 www.nature.com/scientificreports/ be required on a regular basis, we believe it fills an important gap in the arsenal of techniques available to cover the whole range of ligand binding affinities and the protocols suggested here should aid in its application, or at least ...
Although it is well-established that transcription factors bind to specific DNA sequences using a combination of base readout and shape recognition, some fundamental aspects of protein–DNA binding remain poorly understood1,2. Many DNA-binding proteins induce changes in the structure of the DNA out...
states the creation of presumed ligand binding orientations/conformations near a binding site of a protein and can be divided into two, protein flexibility and ligand sampling. Scoring is the prediction of the binding affinities and categorizing most favourable binding modes of ligand to protein[10,...
BindingDB (http://www.bindingdb.org) is a publicly accessible database currently containing ∼20 000 experimentally determined binding affinities of protein–ligand complexes, for 110 protein targets including isoforms and mutational variants, and ∼11 000 small molecule ligands. The data are...
binding affinities of protein A and G can be found in many sources including several commercial suppliers (Gusset al., 1986; Hageet al., 2006). Other immunoglobulin binding proteins that have lately become popular are protein B, asurface proteinof group AStreptococcibacteria, which binds ...
g. in terms of the binding affinities and the types of binding molecules), can influence its intracellular localization (e.g. in terms of effecting changes on signal peptides or localization signals), can modify its enzymatic activity (e.g. in terms of effecting changes in substrate ...
it is possible to distinguish between non-binding (three) and binding protein-ligand combinations (six). Moreover,\(\Delta G_{{\mathrm{bind}}}^{{\mathrm{CG}}}\)is in very good agreement with the experimental values with a mean absolute error of 1 kJ/mol and a maximum error of 2...
cytoplasmic domain. First, the receptor brings Sst2, a regulator of G-protein signalling (RGS), in proximity to its target, Gpa1α, to promote GTP hydrolysis and shut down signalling22. Second, Ste2 is internalized as homo-oligomers and degraded both constitutively and on ligand binding, a ...
Two GOBPs from Plutella xylostella highly expressed in larval antennae show strong binding affinities with the sex pheromone (Z)-11- hexadecenal, and they suggested that this specific expression is related to the tendency of larvae to food sources containing sex pheromones [27]. The research on...
AUXIN BINDING PROTEIN 1: functional and evolutionary aspects AlexandreTromas, ...CatherinePerrot-Rechenmann, inTrends in Plant Science, 2010 As an auxinbinding proteinABP1was rapidly designated as a putative auxin receptor[10–12]. In the 1990s, a large amount of data based on various electrop...