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This means that in direct ligand competition assays with Fl-E2, the compound should be able to compete with the fluorescently labelled E2 and its binding affinity should be close to 1/5,800th that of E2.
A neutral evolutionary model would suggests that, assuming the mean binding affinity of all the isoforms is X in the ancestor Dscam isoforms 40 50 million years ago, the mean binding affinity should be unchanged in both the isoforms containing newly duplicated exons and the conserved isoforms (both are X), and there would be no differences between them and their ancestral isoforms.
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Because a pseudo-dyad axis is shared by the LacR DNA-binding headpiece and the operator sequence, operator-binding affinity should be independent of the local orientation of the DNA binding site.
This affinity should be responsible for TPPS4 binding on the quantum dots surface, despite of the electrostatic repulsion between the QD and porphyrin side groups.
Ideally, this affinity should be minimized.
If autoxidation of BH4 were crucial for the formation of a high-affinity binding site, no high-affinity binding should be observed in the absence of oxygen during preincubation.
The use of "alternative pockets" represents a new mode of high affinity peptide binding, that should be considered when predicting peptide epitopes for MHC class I.
The conservation of the relative affinities implies that the binding preferences of the subtypes will not by themselves determine the heterogeneous distribution of some subtypes in cell nuclei, as high and lower affinity chromatin binding sites should be occupied with similar probabilities by the different subtypes.
The second is that, even though the overall affinity of RAP for cluster II should be ultra-high, each of the two binding sites should be displaceable by a ligand with affinity equal only to that of the individual site.
The absolute increase in fluorescence signal on mGTPγS binding was, however, unusually small (see Materials and methods), so this affinity estimate should be considered preliminary.
In contrast, a specific Aβ-binding reagent should be able to inhibit aggregation at equimolar concentrations due to its higher affinity to Aβ [24].
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com