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Molecular dynamics simulations revealed a common binding mode for these inhibitors, involving association to the TDP2 DNA-binding cleft.
Extensive structure-based computational studies suggested a binding mode for these compounds that led to a structure activity relationship study.
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Crystal structures for these compounds bound to toxin B pentamer revealed a conserved binding mode for the MNPG moiety, with multiple binding modes adopted by the attached morpholine derivatives.
The X-ray crystal structure of 16a in JNK3 reveals an unexpected binding mode for this new scaffold with protein.
A molecular docking study was conducted, and the results showed a consistent and stable binding mode for the typical compounds.
We use chemical proteomics to discover an unusual binding mode for the DGKα inhibitor, ritanserin, including interactions at the atypical C1 domain distinct from the ATP binding region.
The docking mode of 2 with the catalytic domain of TACE was illustrated to analyze the binding mode for the further analogue design.
We also mapped the binding mode for the reported, virtually generated proline analogs and compared it with the reported crystal structure.
A proposed protein ligand binding mode for this compound is also provided to rationalise the high levels of potency and selectivity over inhibition of related sodium channels.
Molecular modeling studies by docking suggested a different binding mode for the most active derivatives, when compared to natural hit chalepin.
In many aspects, the binding mode for the two isoforms, HDAC1 and HDAC6, is very similar.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com