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The observed electron density for the substituted region and the clear electron density for the side chain atoms of the protomer allowed us to finalize the binding modes in both the AC and BD dimers without ambiguity.
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In general, classical amino acid inhibitors such as 2(S -amino-6-boronohexanoic acid (ABH) tend to bind more weakly to S -amino-6-boronohexanoicaS -amino-6-boronohexanoichibitor binding modeS -amino-6-boronohexanoicite.
Alprazolam (Xanax) and diazepam (Valium) binding modes in the α1β3γ2L GABAAR benzodiazepine pocket.
We have found alternative ligand binding modes in most cases.
Three-dimensional molecular docking studies were conducted for each active compound identified in our screening assays, so that we could evaluate and better understand their respective binding modes in the VDR active site.
Some compounds presented significant PPARγ/δ activity and molecular modeling suggested their putative binding modes in the ligand binding domain of PPARγ.
Their antiviral activity was evaluated and molecular modeling was utilized to give further envision on their probable binding modes in the allosteric binding site.
In particular, we focus on amyloid heterogeneity and the consequent range of possible metal binding modes in amyloids, and the effects of metal ion binding.
In roughly 90% of the cases tested, the function was used to place native-like and crystallographic binding modes in global free energy minima.
The structures reveal that AMPA agonists with an isoxazole moiety adopt different binding modes in the receptor, dependent on the substituents of the isoxazole.
The results show that MDockPeP successfully generated near-native peptide binding modes in 95.0% of the bound docking cases and in 92.2% of the unbound docking cases.
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