Protein folding is one of the oldest and hardest problems in computational biology. It is fair to describe the result of protein folding as a 3D model/visualization of the protein. DeepMind's AlphaFold was a big breakthrough in determining how arbitrary structures are folded. Not always correct, but when it is, often faster and cheaper than traditional methods. I believe the latest versions of AlphaFold incorporate transformers, but it's certainly not a large language model like ChatGPT.