Typically, this challenge is addressed through mean-aggregation, where averages are calculated across the embedding dimensions, resulting in more manageable vector sizes of 384, 1024, and 1280 for AlphaFold2, ProtBert, and ESM2 respectively. This aggregation was applied to both the original and the trimmed embeddings, with the results shown in Figure . As anticipated, mean-aggregation led to a significant loss of positional context for each amino acid, obscuring critical structural information.