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We demonstrate that Ca2+ binding to the two sites of a βγ-domain is interdependent and that the presence of Arg at the fifth position disables a site.
This allowed the determination of the solution structure of a ternary complex characterized by two inhibitor molecules binding to the two zinc knuckles of the NC protein.
The results suggest that these synthetic peptides capable of binding to the two P. falciparum target cells could be potentially included in the design of a multi-stage, subunit-based, chemically synthesized antimalarial vaccine.
In this study, to investigate the essential amino acid residues of BTC for binding to the two receptors, we introduced point mutations into the EGF domain of BTC employing error-prone PCR.
Molecular modeling using the Site-Identification by Ligand Competitive Saturation (SILCS) approach was used to qualitatively direct ligand design as well as develop quantitative models for inhibitor binding affinity to Mcl-1 and the Bcl-2 relative Bcl-xL as well as for the specificity of binding to the two proteins.
These include intramolecular binding to the Itk SH3 domain by an internal PRP and to a circular permutant of the α-spectrin SH3 domain by a designed PRP, and bivalent binding to the two SH3 domains of Grb2 by two linked PRPs.
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At acidic pHs between 5.0 and 6.4, shFcRn exhibited substantial binding to the four subclasses of human IgGs at acidic pHs between 5.0 and 6.4, but at pHs between 6.8 and 8.0, its binding was negligible binding.
The molecular mechanics/generalized Born surface area (MM/GBSA) method was used to calculate the binding free energy and identify the key residues for the ERK2 protein binding to the four inhibitors.
This hydrogen bond is not unique to isoquinolinesulfonamide type inhibitors binding to the three enzymes discussed here.
The substitutions were rarely in residues likely to be crucial for binding to the Mamu-B*08 molecule, P2 or the C-terminus.
Upon calcium binding to the four EF-hands of CaM, a hydrophobic pocket opens in each of the two lobes of CaM, which then interact with large hydrophobic or aromatic residues from the target sequence.
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