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Based on our results we conclude that the MD simulation-based rational substitution of histidines by salt-bridge forming residues can modulate conformational dynamics in luciferase and shift its optimal temperature activity.
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This model provides an initial scaffold from which rational substitutions can be proposed and tested to modulate anion selectivity.
A series of eight N-2-phenylethylphosphonyl derivatives of glutamic acid was prepared to determine if the inhibitory potency of a phenylethylphosphonyl derivative of glutamic acid against prostate-specific membrane antigen (PSMA) could be improved through rational substitutions on the phenyl ring.
Sites B3, B5, and B8, capable of affecting the conformation of the N-terminus of the B-chain, were subjects of rational substitutions with amino acids with specific allowed and disallowed dihedral φ and ψ main-chain angles.
Rational residue substitutions were guided by the structure and properties of the binding pockets of the enzyme's active site.
In this study, a salt-resistant hBD28 peptide was designed by increasing C-terminus cationicity of the wild type peptide via rational amino acid substitution.
Our rational amino acid substitution approach resulted in the construction of the Ser114Ala/Phe355Leu mutant, which has an 11-fold decrease in oxidase activity and 2.8-fold increase in dehydrogenase activity compared with wild-type GOx.
Our observation of two clusters of variant residues on the surface of eEF1A1/2 creates the possibility of conducting rational homologous (reverse) substitution mutagenesis.
The benefits derived by this rational process of codon substitution are most dramatically shown by our limited mutagenesis approach to create a single targeted synonymous codon replacement for I141 within the sequence encoding a putative link/end segment contained with MSP142 (FVO) protein.
While selenium supplementation, or substitution, is rational in the European selenium-depleted areas [ 7], the physiology of the endogenous AOX system should be considered.
Imitating the effects of these amino acid substitutions by rational design of reciprocal DMXAA derivatives should lead to the development of human-active STING agonists for antitumor, antiviral, and vaccine adjuvant applications.
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