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Ligand binding and retention in snake gourd seed lectin (SGSL). A crystallographic, thermodynamic and molecular dynamics study

Chandran, T and Sivaji, N and Surolia, A and Vijayan, M (2018) Ligand binding and retention in snake gourd seed lectin (SGSL). A crystallographic, thermodynamic and molecular dynamics study. In: Glycobiology, 28 (12). pp. 968-977.

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Official URL: https://doi.org/10.1093/glycob/cwy072


Snake gourd seed lectin (SGSL) is a non-toxic homolog of type II ribosome-inactivating proteins (RIPs) which contain a catalytic domain and a lectin domain. Isothermal titration calorimetry (ITC) measurements of the interactions of the protein with LacNAc, Lac, Gal, Me-á-Gal were carried out and the crystal structures of the native protein and its complex with Lac were determined. The crystal structure of the Me-á-Gal complex has already been determined. While the crystal structure showed the presence of two-sugar-binding sites, one on each of the two domains of the lectin chain, ITC measurements indicated the presence of only one binding site. In order to resolve this anomaly, molecular dynamics (MD) simulations were carried out on the native protein and on its complexes with Me-á-Gal and Lac. Simulations were also performed on the protein after reducing the inter-chain disulfide bridge between the two chains. The crystal structures and the simulations confirmed the robustness of the protein structure, irrespective of the presence or absence of the disulfide bridge. The simulations indicated that although two sites can bind sugar, only the ligand at one site is retained in a dynamic situation. The studies thus bring out the subtle relationship between binding and retention of the ligand.

Item Type: Journal Article
Publication: Glycobiology
Publisher: Oxford University Press
Additional Information: The copyright for this article belongs to the Authors.
Keywords: galactose; lactose; methyl alpha galactose; n acetyllactosamine; plant lectin; ribosome inactivating protein 2; snake gourd seed lectin; sugar; unclassified drug; lectin; ligand, Article; binding site; complex formation; crystal structure; crystallography; enzyme active site; isothermal titration calorimetry; ligand binding; molecular dynamics; nonhuman; plant; plant seed; priority journal; protein domain; protein interaction; protein stability; protein structure; Snake gourd; thermodynamics; calorimetry; chemistry; Cucurbitaceae; plant seed; protein conformation; X ray crystallography, Binding Sites; Calorimetry; Crystallography, X-Ray; Cucurbitaceae; Lectins; Ligands; Molecular Dynamics Simulation; Protein Conformation; Seeds; Thermodynamics
Department/Centre: Division of Biological Sciences > Molecular Biophysics Unit
Date Deposited: 23 Aug 2022 06:08
Last Modified: 23 Aug 2022 06:08
URI: https://eprints.iisc.ac.in/id/eprint/76193

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