<?xml version="1.0" encoding="utf-8" standalone="yes"?><rss version="2.0" xmlns:atom="http://www.w3.org/2005/Atom"><channel><title>Week 05 HW: Protein Design Part 2 :: 2026a-scarlett-kelly</title><link>https://pages.htgaa.org/2026a/scarlett-kelly/homework/week-05-hw-protein-design-part-ii/----title-week-1-hw-principles-and-practices-weight-10----_index/index.html</link><description>Part A: SOD1 Binder Peptide Design (From Pranam)
SRWDVYAGAVKWARK	10.46594,
WWVPPYTAVYAWKKK	17.463782,
SRWGEYVGVYKARAA	12.508359,
WRVDVVVAVKKAKKK	12.361373,
while FLYRWLPSRRGG shows perplexity 8.1.
imTM = 0.37, seems to be a random surface and hardly binds.
imTM = 0.31, a random surface and hardly binds
imTM = 0.4, dimer interface
imTM = 0.32, random surface
imTM = 0.43, dimer interface
The imTM values are small, which returns weak binding. I don’t think that any peptide matches the known binder.</description><generator>Hugo</generator><language>en</language><atom:link href="https://pages.htgaa.org/2026a/scarlett-kelly/homework/week-05-hw-protein-design-part-ii/----title-week-1-hw-principles-and-practices-weight-10----_index/index.xml" rel="self" type="application/rss+xml"/></channel></rss>