David L. Stokes

David L. Stokes, PhD

Skirball Institute

Professor, Department of Cell Biology

Keywords
cryo-electron microscopy, X-Ray crystallography, ion transport, biophysics, channels and transporters
Summary

Our laboratory is interested primarily in the molecular mechanisms of membrane transport. We use a variety of methods to study active transporters that directly use ATP as an energy source as well as secondary transporters that couple transport to the electrochemical gradient. Current transporters under study include the KdpFABC complex from bacteria that is responsible for active import of potassium, the YiiP transporter, also from bacteria, that uses the proton motive force to export zinc and the Bor1p transporter from yeast that imports borate. We have solved structures of each transporter using either X-ray crystallography or Cryo-EM and have used activity assays to characterize the functional parameters of transport. We are currently exploring a variety of experimental and computational approaches to characterize the conformational changes that accompany transport, with the goal of ultimately developing a comprehensive understanding of the transport cycle from both structural and energetic perspectives.

Phone

212-263-1580

Academic office

540 First Avenue

Skirball Institute, Lab 3-13

New York, NY 10016

Lab Website
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These focus areas and their associated publications are derived from medical subject headings from PubMed.
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Professor, Department of Cell Biology

PhD from Brandeis University

Fai, Thomas G; Leo-Macias, Alejandra; Stokes, David L; Peskin, Charles S

PLoS computational biology. 2017 Oct 9; 13(10):e1005790-e1005790e1005790

Saadipour, Khalil; MacLean, Michael; Pirkle, Sean; Ali, Solav; Lopez-Redondo, Maria Luisa; Stokes, David L; Chao, Moses V

Journal of biological chemistry. 2017 Aug 17; 292(40):16594-16604

Huang, Ching-Shin; Pedersen, Bjorn Panyella; Stokes, David L

Nature. 2017 Jun 21; 546(7660):681-685

Upla, Paula; Kim, Seung Joong; Sampathkumar, Parthasarathy; Dutta, Kaushik; Cahill, Sean M; Chemmama, Ilan E; Williams, Rosemary; Bonanno, Jeffrey B; Rice, William J; Stokes, David L; Cowburn, David; Almo, Steven C; Sali, Andrej; Rout, Michael P; Fernandez-Martinez, Javier

Structure. 2017 Feb 2; 25(3):434-445

Fernandez-Martinez, Javier; Kim, Seung Joong; Shi, Yi; Upla, Paula; Pellarin, Riccardo; Gagnon, Michael; Chemmama, Ilan E; Wang, Junjie; Nudelman, Ilona; Zhang, Wenzhu; Williams, Rosemary; Rice, William J; Stokes, David L; Zenklusen, Daniel; Chait, Brian T; Sali, Andrej; Rout, Michael P

Cell. 2016 Nov 17; 167(5):1215-1228.e25

Coudray, Nicolas; Seyler, Sean; Lasala, Ralph; Zhang, Zhening; Clark, Kathy M; Dumont, Mark E; Rohou, Alexis; Beckstein, Oliver; Stokes, David L

Protein science. 2016 Oct 21; 26(1):130-145

Domanski, Michal; Upla, Paula; Rice, William J; Molloy, Kelly R; Ketaren, Natalia E; Stokes, David L; Jensen, Torben Heick; Rout, Michael P; LaCava, John

RNA. 2016 Sep; 22(9):1467-1475

Coudray, Nicolas; Lasala, Ralph; Zhang, Zhening; Clark, Kathy M; Dumont, Mark E; Stokes, David L

Journal of structural biology. 2016 Aug; 195(2):167-178