Reposted by Yulia GutierrezbioRxiv Biophysics @biorxiv-biophys.bsky.social · 13/11/2025Global Analysis of Aggregation Determinants in Small Protein Domains www.biorxiv.org/content/10.1101/202… 01112
Reposted by Yulia GutierrezScience Policy Group at UCSF @spgatucsf.bsky.social · 05/05/2025📣 Federally funded scientists! Now more than ever before, it is critical that we bridge the gap btw scientists & the community to rebuild trust & address misinformation. Join the national #McClintockLetters movement to #DefendResearch, improve #SciComm, & share your scientific story! ⤵️ 12511
Reposted by Yulia GutierrezGabriel Rocklin @grocklin.bsky.social · 26/03/2025Small proteins can be more complex than they look! We know proteins fluctuate between different conformations- but by how much? How does it vary from protein to protein? Can highly stable domains have low stability segments? @ajrferrari.bsky.social experimentally tested >5,000 domains to find out! 48736
Reposted by Yulia GutierrezbioRxiv Biophysics @biorxiv-biophys.bsky.social · 25/03/2025Large-scale discovery, analysis, and design of protein energy landscapes www.biorxiv.org/content/10.1101/202… 0128
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025A tremendous thank you to Gabe and members of the Rocklin lab for their feedback! 8/8 000
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025And we explore how Ala and Gly insertions at the same position can have very different effects! 7/8 100
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025The Pin1 WW domain example illustrates how deletions can stabilize a domain by relieving backbone strain 6/8 100
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025Using the Rosetta energy function, we see that stabilizing deletions (but not insertions) are often found in regions of higher backbone strain 5/8 100
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025Additionally, we find that Rosetta’s energy function outperforms an ESM-IF based analysis in predicting mutational effects of stabilizing indels 4/8 100
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025Using ColabFold predicted structures of stabilized variants, we show that most indel mutations cause minimal structural perturbations 3/8 100
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025We analyzed 103 stabilizing amino acid indel mutants of 48 diverse natural and designed small protein domains 2/8 100
Yulia Gutierrez @yuliagutierrez.bsky.social · 10/01/2025I'm super excited to share my recent work with @grocklin.bsky.social “Structural and energetic analysis of stabilizing indel mutations” biorxiv.org/content/10.1.... 1/8biorxiv.orgStructural and energetic analysis of stabilizing indel mutationsAmino acid insertions and deletions (indels) are among the most common protein mutations and necessitate changes to a protein’s backbone geometry. Examining how indels affect protein folding stability... 151