A. M. Damry

Ancestral reconstruction of polyethylene terephthalate degrading cutinases reveals a rugged and unexplored sequence-fitness landscape

This study uses ancestral sequence reconstruction to explore PET-degrading cutinase sequence space, revealing diverse evolutionary pathways and the effectiveness of LASE in mapping fitness landscapes.

Computational remodeling of an enzyme conformational landscape for altered substrate selectivity

This study computationally redesigns an enzyme's conformational landscape to enhance catalytic efficiency with a non-native substrate, achieving up to 1900-fold selectivity switch.

Electrodetection of small molecules by conformation-mediated signal enhancement

This paper develops an electrochemical biosensing platform that uses conformational changes in solute-binding proteins to enhance signal detection of small molecules like leucine and glycine.

Substrate dynamics contribute to enzymatic specificity in human and bacterial methionine adenosyltransferases

This study investigates how substrate conformational dynamics influence enzymatic specificity in human and bacterial methionine adenosyltransferases, revealing differences in catalytic promiscuity and identifying a new metabolite in cancer cells.

Structural and functional characterization of a putative de novo gene in Drosophila

The paper characterizes a de novo gene in Drosophila, showing its structural features and role in male fertility through biochemical and evolutionary analyses.

Consensus mutagenesis and ancestral reconstruction provide insight into the substrate specificity and evolution of the front-end Δ6-desaturase family

This study uses consensus mutagenesis and ancestral reconstruction to analyze the substrate specificity and evolutionary adaptation of Δ6-desaturases in marine algae.

Origin of Conformational Dynamics in a Globular Protein

This study shows how two mutations can create conformational dynamics in a globular protein through synergistic effects on its energy landscape.

Rational design of proteins that exchange on functional timescales

This paper designs proteins that exchange between defined conformational states on functional timescales using a new computational method called meta-multistate design.