Binding properties of palmatine to DNA: spectroscopic and molecular modeling investigations

Abstract

Palmatine, an isoquinoline alkaloid, is an important medicinal herbal extract with diverse pharmacological and biological properties. In this work, spectroscopic and molecular modeling approaches were employed to reveal the interaction between palmatine and DNA isolated from herring sperm. The absorption spectra and iodide quenching results indicated that groove binding was the main binding mode of palmatine to DNA. Fluorescence studies indicated that the binding constant (K) of palmatine and DNA was ~ 10(4)L·mol(-1). The associated thermodynamic parameters, ΔG, ΔH, and ΔS, indicated that hydrogen bonds and van der Waals forces played major roles in the interaction. The effects of chemical denaturant, thermal denaturation and pH on the interaction were investigated and provided further support for the groove binding mode. In addition to experimental approaches, molecular modeling was conducted to verify binding pattern of palmatine-DNA.

Comparative proteomics analysis indicates that palmatine contributes to transepithelial migration by regulating cellular adhesion

“…Proteomic analysis based on mass spectrometry and bioinformatics is a powerful and high-throughput technique to identify global differentially expressed proteins (DEPs) (Yang et al 2018). The desire to fully understanding the pharmacological effects of palmatine and its derivatives and elucidate their mechanisms using genomics, proteomics and other advanced approaches has attracted scientists (Mi et al 2015). However, differences in the global expression of proteins in mucosal epithelial cells treated with palmatine compared to control cells have not been reported.…”

<p>Palmatine as an Agent Against Metabolic Syndrome and Its Related Complications: A Review</p>

“…Similar to other isoquinoline alkaloids, palmatine can bind to DNA through groove-binding mechanism by forming hydrogen and van der Waals bonds. 79 Other studies demonstrated that palmatine binds to poly (A) and tRNA, 80,81 adeninethymine homo and hetero polymers through the intercalation. 82 It also binds preferentially to DNAs that have a long sequence of AT base pairs.…”

Palmatine: A review of pharmacological properties and pharmacokinetics

“…It has been proven by different techniques that this compound intercalates into the ctDNA bases and also that the compound has the ability to bind to the DNA minor groove through hydrogen bonds and Van der Waals interactions. Groove binding predominates over electrostatic interactions and intercalation (Li, Shuang, & Dong, ; Mi et al, ). PLT has a strong affinity for DNAs that have a long sequence of AT base pairs.…”