A. E. Keating

Elaboration of the Homer1 Recognition Landscape Reveals Incomplete Divergence of Paralogous EVH1 Domains

The paper identifies sequences that bind to Homer1 EVH1 domain through proteome screening, revealing overlapping binding preferences with Ena/VASP EVH1 domains and suggesting incomplete divergence from a common ancestor.

High-throughput discovery of inhibitory protein fragments with AlphaFold

This paper introduces FragFold, a computational method using AlphaFold to predict inhibitory protein fragments, showing high accuracy in predicting binding and inhibitory activity.

Marginal specificity in protein interactions constrains evolution

This study shows that bacterial signaling paralogs have marginal specificity, where many single mutations can cause cross-talk, constraining their evolution.

Neural Network-Derived Potts Models for Structure-Based Protein Design using Backbone Atomic Coordinates and Tertiary Motifs

This paper combines neural network models with tertiary motif data to improve protein design by generating Potts energy models that predict folding and energetics.

Molecular determinants of TRAF6 binding specificity suggest that native interaction partners are not optimized for affinity

The paper identifies TRAF6 MATH domain binding preferences using combinatorial peptide libraries and structural modeling, revealing that native ligands are not optimized for affinity.

Discovery of diverse human BH3-only and non-native peptide binders of pro-apoptotic BAK indicate that activators and inhibitors use asimilar binding mode and are not distinguished by binding affinity or kinetics

The paper identifies new BAK binders that show similar binding modes and kinetics to both activators and inhibitors, suggesting sequence-function relationships are not determined by affinity or kinetics.

A distributed residue network permits conformational binding specificity in a conserved family of actin remodelers

The paper identifies a conformational mechanism enabling specificity in ENAH EVH1 binding to PCARE, and designs a highly selective inhibitor.

Native proline-rich motifs exploit sequence context to target actin-remodeling Ena/VASP proteins

The paper identifies how proline-rich motifs interact with ENAH EVH1 domain through sequence context, revealing extended SLiMs and their role in protein-protein interactions.

Tertiary structural motif sequence statistics enable facile prediction and design of peptides that bind anti-apoptotic Bfl-1 and Mcl-1

This paper introduces a method using tertiary structural motifs to predict and design peptides that bind anti-apoptotic proteins Bfl-1 and Mcl-1 with high accuracy and efficiency.