<?xml version="1.0" encoding="utf-8" standalone="yes"?><rss version="2.0" xmlns:atom="http://www.w3.org/2005/Atom"><channel><title>Week 5 — Protein Design Part II :: 2026a-andrea-maria-malanca</title><link>https://pages.htgaa.org/2026a/andrea-maria-malanca/homework/week-5-protein-design-part-2/index.html</link><description>✨ Part A. SOD1 Binder Peptide Design ✨ Part 1: Generate Binders with PepMLM I searched for the SOD1 amino acid sequence in the UniProt database (P00441) and found that the protein has 154 amino acids:
&gt;MATKAVCVLKGDGPVQGIINFEQKESNGPVKVWGSIKGLTEGLHGFHVHEFGDNTAGCTSAGPHFNPLSRKHGGPKDEERHVGDLGNVTADKDGVADVSIEDSVISLSGDHCIIGRTLVVHEKADDLGKGGNEESTKTGNAGSRLACGVIGIAQ After that, I inserted the sequence into the Colab notebook. I set the parameters to generate 4 peptide binders, each with a length of 12 amino acids. The model then generated the following peptides:</description><generator>Hugo</generator><language>en</language><atom:link href="https://pages.htgaa.org/2026a/andrea-maria-malanca/homework/week-5-protein-design-part-2/index.xml" rel="self" type="application/rss+xml"/></channel></rss>