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. 2020 Dec 1;28(12):1358-1360.e2.
doi: 10.1016/j.str.2020.07.014. Epub 2020 Aug 11.

DStabilize: A Web Resource to Generate Mirror Images of Biomolecules

Ashar J Malik  1 , Pietro G A Aronica  1 , Chandra S Verma  2
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Free article

DStabilize: A Web Resource to Generate Mirror Images of Biomolecules

Ashar J Malik et al. Structure. .
Free article

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Abstract

Peptides comprising D-amino acids have been shown to be resistant to proteolysis. This makes them potential candidates as probes of cellular interactions, notably protein-biomolecule interactions. However, the empirical conversion of the amino acids that constitute a peptide from L-forms to D-forms will result in abrogation of the normal interactions made by the L-amino acids due to side-chain orientation changes that are associated with the changes in chirality. These interactions can be preserved by reversing the sequence of the D-peptide. We present a web server (http://dstabilize.bii.a-star.edu.sg/) that allows users to convert between L-proteins and D-proteins and for sequence reversal of D-peptides, along with the capability of performing other empirical geometric transforms. This resource allows the user to generate structures of interest easily for subsequent in silico processing.

Keywords: D-proteins; enantiomers; peptide design; protein structure transformation; retero-inverso.

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Conflict of interest statement

Declaration of Interests C.S.V. is founder director of SiNOPSEE Therapeutics and Aplomex. C.S.V. and P.G.A.A. are part of a team in A(∗)STAR who have a joint patent application with MSD International (P53 activator peptidomimetic macrocycles. US patent application no. 62864531, filed June 2019. Patent pending); C.S.V. receives research funding for his group (in the Bioinformatics Institute, A(∗)STAR) from MSD International for work on peptides; A.J.M. and P.G.A.A. declare no competing interests.

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