The molecular nature of interactions between ferulic acid and β-lactoglobulin was investigated following exposure of solutions to high temperature (121 °C) at near neutral pH (7.3) using biochemical spectroscopy, proteomics and molecular dynamics. Circular dichroism (CD) and infrared spectroscopy (FTIR) argue for alterations in the secondary structure of the heated protein molecule in the presence of the ligand. In addition, UV–vis recorded a considerable increase in the absorption of the β-lactoglobulin-ferulic acid preparation following heat treatment, an outcome which indicates the formation of a covalent interaction between the two components in the mixture. Molecular docking studies in combination with molecular dynamics simulations predicted the covalent interaction between lysine 100 and the aromatic ring of the phenolic acid along with a range of non-covalent bonds to form a new adduct. Protein hydrolysis experiments combined with MALDI-TOF MS analysis demonstrated the chemical nature of interaction between ferulic acid and ε amino group of the amino acid. It is hoped that the work will provide a broader understanding of the molecular interactions between phenolic acids and dairy proteins following thermal treatment at elevated temperature.