Structural Enzymology

Enzymes play central roles in all metabolic and cellular signaling pathways. Many investigators in the department are interested in understanding how enzymes function at the molecular and atomic level through a combination of modern biochemistry and structural biology. Techniques which are being employed to investigate enzyme structure and dynamics include X-ray crystallography, cryo-electron microscopy, NMR, mass spectroscopy and protein chemistry, while their chemical behavior is being characterized by rapid-reaction and steady-state kinetics, calorimetry, chemical analyses, and a variety of spectroscopies. Protein engineering is being used to study how structure determines function. Through the use of these techniques, investigators are able to probe mechanism and specificity in order to gain a greater understanding of how enzymes work and how they function in the context of molecular pathways in the cell. Such knowledge could provide the basis for new medical treatments, pollution-control strategies, or many other applications.

Ruma Banerjee, Ph.D.

Structure and mechanisms of radical and redox-active enzymes, the chemical biology of B12 trafficking, regulation of human sulfur metabolism, biochemistry of B-vitamin associated human metabolic diseases, redox communication between glial, neural, dendritic and T cells in immune and neuro-immune function. 

Uhn-Soo Cho, Ph.D.

Biochemical and structural studies of kinetochore assembly, histone chaperones, and Sestrin-mediated mTORC1 regulation.

Michael Cianfrocco, Ph.D.

Structural biology and biophysics underlying microtubule-based intracellular transport.

Yali Dou, Ph.D.

Functions of chromatin modification enzymes in transcription regulation, cell fate determination, and cancer.

Peter Freddolino, Ph.D.

High throughput structure-based function prediction, optimal use of cross-linking mass spectrometry for structure determination, structural genomics.

Robert Fuller, Ph.D.

Protein localization and vesicular transport in the eukaryotic secretory/endocytic pathways using budding yeast as a system and employing biochemical reconstitution, cell biology, genetics and fluorescence resonance energy transfer (FRET) microscopy as methods. Protein trafficking in human neurodegenerative and neurodevelopmental disease. Proteolytic processing by enzymes of the SPC/Kex2/furin family in yeast and metazoans with interest in structure-function relationships and discovery of human furin inhibitors as drug models for infectious, degenerative and neoplastic disease. 

Neil Marsh, Ph.D.

Structure and mechanism of coenzyme B12 and S-adenosylmethionine-dependent radical enzymes. Design and synthesis of "Teflon" proteins - introducing new properties into proteins using fluorinated amino acids.

James Morrissey, Ph.D.

Biochemistry of the human blood clotting system; structural studies of protein-membrane complexes.

Patrick O'Brien, Ph.D.

Biochemical, biophysical, and structural approaches to understanding mechanisms of human DNA repair. 

Bruce Palfey, Ph.D.

Mechanistic enzymology with a focus on flavoproteins involved in pyrimidine biosynthesis, tRNA maturation, inhibitor design, and structure/function relationships. 

Stephen Ragsdale, Ph.D.

Molecular mechanisms of enzymes involved in metabolism of energy-relevant and greenhouse gases (CO, CO₂, methane), heme, and methylmercury; mechanisms of nickel, B12, heme, and iron-sulfur enzymes.

Mark Saper, Ph.D.

Structural studies of bacterial cell wall endopeptidases (“autolysins”) to understand how they are regulated during cell growth and division. 

Janet Smith, Ph.D.

Structure-function studies of proteins using X-ray crystallography with an emphasis on complex enzymes and the replication proteins of flaviviruses and alphaviruses. 

Raymond Trievel, Ph.D.

Chemical and structural biology of enzymes that covalently modify histones, transcription factors, and other nuclear proteins. Our current research focuses on elucidating the molecular mechanisms underlying the specificities of histone methyltransferases and demethylases and on developing new assays and reagents to characterize these enzymes.

Nils Walter, Ph.D.

Powerful single molecule studies of mechanistic structure-dynamics-function relationships in RNAs of biomedical and bioanalytical significance. Our work ranges from small bacterial riboswitches to RNA-protein complexes involved in human disease.

Zhaohui Xu, Ph.D.

Molecular mechanisms of protein biogenesis including protein folding, membrane trafficking, and stress response; structural biology of protein-protein interaction and molecular recognition using X-ray crystallography.