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In 1991, Herzberg reported that sterically strained residues are energetically unfavourable by calculating the energy for N-acetyl-N′-methylalanyl amide with geometry optimization of bonds, bond angles, and torsions [ 23].
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This paper presents the measures to overcome Cu oxidation, the optimization of bonding parameters and the improvement in capillary design.
This paper focuses on optimization of bond wire positions as a method to improve thermal management of power semiconductors.
Although numerous researches has been conducted to investigate the pullout behaviour of steel fibres embedded in UHPC matrix, research in the optimization of bond characteristics of UHPC is limited (Wille and Naaman 2012).
Protein preparation implicated the addition and optimization of hydrogen atoms, removal of bad contacts, optimization of bond lengths, creation of disulphide bonds, capping of protein terminals, and conversion of selenomethionine to methionine.
Protein was pre-processed separately by deleting the substrate co-factor as well as the crystallographically observed water molecules (water without H bonds), followed by optimization of hydrogen bonds.
It was found that successful vacuum packaging could be achieved through the optimization of the bonding process by reducing leakage and the deposition of titanium coating for reducing out-gassing inside the cavity.
Heterostate for cocrystallized ligand was generated using Epik; protonation state and optimization of H-bonding of the protein side chains were assigned using ProtAssign.
The lack of a terminal GU penalty may arise from the flexibility of a terminal GU pair which allows optimization of hydrogen bonding and stacking interactions without incurring the energetic penalty associated with an interior GU distorting the backbone.
The proteins were prepared by using the Protein Preparation Wizard, pre-processed and heterostate for co-crystallized ligand was generated using Epik; protonation state and optimization of H bonding of the protein side chains were assigned using Protassign, energy minimization (impref minimization) was carried out using default constraint of 0.3 Å RMSD and OPLS 2005 force field.
Comparison with 2 shows remarkably similar corresponding values of ±0.085 Å and 2.201 2) Å, despite the different (1,4) metal substitution pattern on the benzenediide ring, suggesting these inverse crown structures organize about the optimization of Mn C σ bonds.
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