7n7e | pdb_00007n7e

Solution structure of the MYC promoter G-quadruplex in complex with berberine: conformer B

spinqualitylabelsall models 7n7e, 10 NMR models Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 7n7e is a 1 chain structure. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: BER Related: 7n7d Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Publication Abstract from PubMed The medicinal natural product berberine is one of the most actively studied and pursued G-quadruplex (G4)-ligands. The major G-quadruplex formed in the promoter region of the MYC oncogene (MycG4) is an attractive drug target and a prominent example and model structure for parallel G-quadruplexes. G4-targeted berberine derivatives have been actively developed; however, the analogue design was based on a previous crystal structure in which berberine binds as a dimer to a parallel G-quadruplex. Herein, we show that in solution, the binding mode and stoichiometry of berberine are substantially different from the crystal structure: berberine binds as a monomer to MycG4 using a base-recruitment mechanism with a reversed orientation in that the positively charged convex side is actually positioned above the tetrad center. Our structure provides a physiologically relevant basis for the future structure-based rational design of G4-targeted berberine derivatives, and this study demonstrates that it is crucial to validate the ligand-DNA interactions. Berberine Molecular Recognition of the Parallel MYC G-Quadruplex in Solution.,Dickerhoff J, Brundridge N, McLuckey SA, Yang D J Med Chem. 2021 Oct 22. doi: 10.1021/acs.jmedchem.1c01508. PMID:34677968 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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