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In silico docking suggests a unique mode of binding of the most efficient compounds to the β1 catalytic site (PA activity) in relation to the chemical nature of C1 substituents.
Whereas all the complexes interact well with DNA, with binding modes and strength tuned in different extents by the NN and semicarbazone co-ligands, molecular docking suggests that the observed anti-T.
Finally docking suggests they may fit into the pocket that the co-crystal ligands bind to.
The involvement of syntaxin-1/SNAP-25 acomplexesomplexes in docking suggests a direct requirement for SNAP-25 in docking, similar to syntaxin-1.
However, for the latter ligand, docking suggests that the 2-amino group is improperly positioned for catalysis, interacting with the A42 U43 phosphodiester bond rather than with the susceptible phosphodiester linkage between A-1 and G1.
Similar(55)
The results of molecular docking suggest that glabridin did not directly bind to the active site of tyrosinase.
Molecular docking suggested that epimerization at the 3-position reshapes the orientation of the 3-O-sidechain and leads to considerably weaker binding with bacterial ribosomes.
Molecular modeling studies by docking suggested a different binding mode for the most active derivatives, when compared to natural hit chalepin.
Molecular docking suggested that the terminal valine moiety and the ethyleneglycol linker in compound 14j formed additional apolar and polar interaction network with a number of amino acid residues.
In vitro binding assays, employing synthetic peptides together with in silico docking, suggested the three-helix bundle binds to the EV71 "canyon" and that the entrance of the putative lipid-transfer tunnel is in proximity to the hydrophobic pocket underneath the "canyon" at neutral pH.
Bioinformatic analyses through molecular docking suggest that this lupane has high-affinity binding with DNA topoisomerase.
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CEO of Professional Science Editing for Scientists @ prosciediting.com