<?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 HW: Protein design II :: 2026a-serban-domil</title><link>https://pages.htgaa.org/2026a/serban-domil/homework/week-05-hw-protein-design-part-ii/index.html</link><description>Part A: SOD1 binder peptide design Using the Uniprot database, here is the SOD1 Protein sequence that I managed to find:
sp|P00441|SODC_HUMAN Superoxide dismutase Cu-asdn OS=Homo sapiens OX=9606 GN=SOD1 PE=1 SV=2 MATKAVCVLKGDGPVQGIINFEQKESNGPVKVWGSIKGLTEGLHGFHVHEFGDNTAGCTSAGPHFNPLSRKHGGPKDEERHVGDLGNVTADKDGVADVSIEDSVISLSGDHCIIGRTLVVHEKADDLGKGGNEESTKTGNAGSRLACGVIGIAQ
After using the PepMLM Colab I managed to obtain these 4 peptides and their perplexity. After that I added the known binder and computed its perplexity the same way, in the end having these 5 proteins:</description><generator>Hugo</generator><language>en</language><atom:link href="https://pages.htgaa.org/2026a/serban-domil/homework/week-05-hw-protein-design-part-ii/index.xml" rel="self" type="application/rss+xml"/></channel></rss>