I. A. Shkel

Quantifying Amide-Aromatic Interactions at Molecular and Atomic Levels: Experimentally-determined Enthalpic and Entropic Contributions to Interactions of Amide sp2O, N, C and sp3C Unified Atoms with Naphthalene sp2C Atoms in Water

The paper quantifies enthalpic and entropic contributions of amide-aromatic interactions in water, revealing their thermodynamic driving forces and relevance to protein processes.

How Glutamate Promotes Liquid-liquid Phase Separation and DNA Binding Cooperativity of E. coli SSB Protein

This study shows that potassium glutamate promotes liquid-liquid phase separation and non-nearest-neighbor cooperativity of E. coli SSB protein through amide group interactions, while KCl inhibits these processes.

Experimentally-Determined Strengths of Atom-Atom (C, N, O) Interactions Responsible for Protein Self-Assembly in Water: Applications to Folding and Other Protein Processes

The paper quantifies intrinsic strengths of atom-atom interactions in amides relative to water, providing insights into their roles in protein self-assembly and stability.

Fluorescence-Detected Conformational Changes in Duplex DNA in Open Complex Formation by E. coli RNA Polymerase: Upstream Wrapping and Downstream Bending Precede Clamp Opening and Insertion of the Downstream Duplex

This study uses FRET and PIFE to analyze DNA conformational changes during E. coli RNA polymerase open complex formation, revealing upstream wrapping and downstream bending before clamp opening.