The overlaps between close neighbors representing different kinase families on the UMAP raises a question as to how it relates to kinase evolutionary relationships. We selected kinases that were closely positioned on the UMAP of AlphaFold2 embeddings, spanning both intrafamily and inter-family groupings, for detailed visual comparison (Figure ). For instance, we compared two CAMK kinases, A and G, with another kinase, IκBKβ, as shown on Figure . Despite their proximity on the UMAP, the structural comparison revealed minimal differences, except for an extended β-sheet present in IκBKβ. In terms of sequence similarity, CAMK kinases A and G share a high similarity of 95% with each other but only 45% with IκBKβ, illustrating that the embedding representations capture structural similarities rather than sequence similarities. This pattern does not hold for ESM2 embeddings, where the proximity strictly indicates closeness within kinase families rather than across them.