https://pages.htgaa.org/2026a/anushka-shinde/homework/week-05-protein-design-part-2/index.htmlHuman SOD1 sequence MATKAVCVLKGDGPVQGIINFEQKESNGPVKVWGSIKGLTEGLHGFHVHEFGDNTAGCTSAGPHFNPLSRKHGGPKDEERHVGDLGNVTADKDGVADVSIEDSVISLSGDHCIIGRTLVVHEKADDLGKGGNEESTKTGNAGSRLACGVIGIAQ After adding A4V mutation MATKVVCVLKGDGPVQGIINFEQKESNGPVKVWGSIKGLTEGLHGFHVHEFGDNTAGCTSAGPHFNPLSRKHGGPKDEERHVGDLGNVTADKDGVADVSIEDSVISLSGDHCIIGRTLVVHEKADDLGKGGNEESTKTGNAGSRLACGVIGIAQ Therefore, produced peptides: index Binder Pseudo Perplexity 1 WLYVVAAVRWKX 23.320599604199636 2 WRYVAAAAAHKE 8.96053025308908 3 WLYVPAGLALWX 13.021677157633269 4 WLYYVVAVAHKX 15.430388570774006 5 FLYRWLPSRRGG 11.545571242285833 ##Part 2: Evaluating Binders with alpha fold3 The alpha fold results for some reason are not loading for me, despite multiple attempst and troubleshooting. Hence the results were analyzed with the help of Claude using PAE matrices peptide 1 ipTM 0.38 The PAE matrix shows a uniformly mid-green inter-chain strip with no distinct dark patch, indicating no preferred binding site and the peptide appears to be floating without specific engagement.Hugoen