Understanding protein function requires the probing of both structure and dynamics. Traditional methods have limitations when attempting to capture dynamic behaviour. Hydrogen-Deuterium Exchange Mass-Spectrometry (HDX-MS) quantitatively assesses conformational dynamics and empirical models have been used to link the data to molecular dynamics (MD) simulations, potentially offering a more complete view of protein behaviour. My research is focused on reliable and robust methods for generating accurate conformations relevant with respect to experimental HDX-MS data. This is relevant to recently released structural prediction models. Using the wealth of existing data, we want to apply these methods for new insights. All developed code will be released, readily adaptable to existing analysis pipelines.