Thomas Duncan profile picture

Thomas Duncan, PhD

Weiskotten Hall
766 Irving Avenue
Syracuse, NY 13210


Associate Professor of Biochemistry and Molecular Biology




Link to PubMed (Opens new window. Close the PubMed window to return to this page.)


Biochemistry and Molecular Biology
Biomedical Sciences Program


Bioenergetics, enzymology, structural biology, membrane protein function.


Fellowship: Vanderbilt University, 1990, Biochemistry & Molecular Biology
PhD: University of Rochester School of Medicine and Dentistry, 1986, Biochemistry


My research focuses on the structure and function of the ATP synthase - an energy-coupling enzyme complex that is critical to the energy metabolism of most living things. The ATP synthase is located on the inner cell membrane of bacteria, the inner mitochondrial membrane of eukaryotes and on the thylakoid membrane of plant chloroplasts. In the terminal step of oxidative- and photo-phosphorylation, it extracts energy from a transmembrane, electrochemical gradient of protons to drive the synthesis of most cellular ATP.


The ATP synthase consists of two sub-complexes with distinct but coupled functions. The F0complex spans the membrane bilayer and transports protons. F1 is a peripheral complex that extends into the aqueous phase and contains three catalytic nucleotide binding sites for ATP synthesis (one visible in cartoon). carton F0 and F1 are coupled through two stalk-like connections of subunits, a central rotor shaft and a peripheral stator. My earlier studies with Richard Cross provided key initial evidence that energy coupling by the ATP synthase involves

  1. rotation of the central shaft within F1 to coordinate the actions of three cooperative, alternating catalytic nucleotide sites, and
  2. rotation of subunits within F0 during energy-driven proton transport.

Remarkably, energy coupling by the ATP synthase is very efficient and reversible: respiration-driven proton transport through F0 can drive net synthesis of ATP, but net hydrolysis of ATP can also be used to drive proton transport in the opposite direction, thereby generating a transmembrane, electrochemical proton gradient.

Experimental system

Our research primarily uses the bacterial ATP synthase from Escherichia coli, which provides a simple yet powerful model system for structure/function studies of this rotary motor enzyme. The E. coli system provides straightforward genetic screening and engineering of the ATP synthase, and also allows large-scale purification of F0F1 and isolated F1 for biochemical studies.

Current projects

  1. Determine high-resolution structures of E. coli F1 and F0F1 by X-ray crystallography. A collaboration with Dr. Gino Cingolani, an experienced protein crystallographer (now at Thomas Jefferson Univ., Philadelphia).
  2. Determine how the rotor-associated epsilon subunit regulates activity of E. coli F1, and how epsilon may respond to changes in the electrochemical proton gradient to regulate the activty of membrane-bound E. coli F0F1.
  3. Engineer specific cysteines into different subunits of F0F1 for fluorescent labeling and assays of functional subunit rotation by single-particle fluorescence resonance energy transfer (sp-FRET). A preliminary collaboration with single-molecule microscopist, Dr. Michael Börsch (Physics Institute, University of Stuttgart, Germany).