Application of Molecular Dynamics Simulations to Determine Interactions between Canary Seed (Phalaris canariensis L.) Bioactive Peptides and Skin-Aging Enzymes

Int J Mol Sci. 2023 Aug 30;24(17):13420. doi: 10.3390/ijms241713420.

Abstract

Food bioactive peptides are well recognized for their health benefits such as antimicrobial, antioxidant, and antihypertensive benefits, among others. Their drug-like behavior has led to their potential use in targeting skin-related aging factors like the inhibition of enzymes related with the skin-aging process. In this study, canary seed peptides (CSP) after simulated gastrointestinal digestion (<3 kDa) were fractioned by RP-HPLC and their enzyme-inhibition activity towards elastase and tyrosinase was evaluated in vitro. CSP inhibited elastase (IC50 = 6.2 mg/mL) and tyrosinase (IC50 = 6.1 mg/mL), while the hydrophobic fraction-VI (0.2 mg/mL) showed the highest inhibition towards elastase (93%) and tyrosinase (67%). The peptide fraction with the highest inhibition was further characterized by a multilevel in silico workflow, including physicochemical descriptor calculations, antioxidant activity predictions, and molecular dynamics-ensemble docking towards elastase and tyrosinase. To gain insights into the skin permeation process during molecular dynamics simulations, based on their docking scores, five peptides (GGWH, VPPH, EGLEPNHRVE, FLPH, and RPVNKYTPPQ) were identified to have favorable intermolecular interactions, such as hydrogen bonding of polar residues (W, H, and K) to lipid polar groups and 2-3 Å van der Waals close contact of hydrophobic aliphatic residues (P, V, and L). These interactions can play a critical role for the passive insertion of peptides into stratum corneum model skin-membranes, suggesting a promising application of CSP for skin-aging treatments.

Keywords: antioxidant activity; bioactive peptides; canary seed; elastase; molecular dynamics simulations; skin-ageing; skin-aging; tyrosinase.

MeSH terms

  • Antioxidants / pharmacology
  • Molecular Dynamics Simulation
  • Monophenol Monooxygenase*
  • Pancreatic Elastase
  • Phalaris*
  • Seeds

Substances

  • Monophenol Monooxygenase
  • Pancreatic Elastase
  • Antioxidants

Grants and funding

This research was supported by National Supercomputing Center—IPICYT for the computational resources through grant TKII-AMVL001, Huitzilin High Performance Computing resources at INECOL A.C., and supercomputing resources at Miztli through LANCAD-UNAM-DGTIC-347. This work was also supported by the USDA National Institute of Food and Agriculture, Hatch Act formula funds, project 1019794.