David L. Stokes

Biosketch / Results /

David Stokes

Professor, Department of Cell Biology
Scientific Director - NYCSBE CEM

Contact Info

Address
540-562 First Avenue
New York, NY 10016

212/263-1580
david.stokes@med.nyu.edu


Research Summary

CopA is an ATP-dependent Cu+ pump belonging to the family of P-type ion pumps. YiiP is a Zn2+ transporter belonging to the Cation Diffusion Facilitator (CDF) family. We used methods of helical reconstruction to solve 3D structures of both proteins. For CopA, the structures have allowed us to address the role of the N-terminal domain in regulation. Read more For YiiP, we are comparing using the structure to evaluate conformational changes related to the mechanism of transport. Read more

As part of the Transcontinental EM Initiative for Membrane Protein Structure, we have been developing technologies for producing and analyzing two-dimensional crystals. Read more

Red blood cells are characterized by a specialized cytoskeleton that confers remarkable flexibility to the cell. We have used cryo-electron tomography to visualize the 3D topology of the spectrin network that underlies this skeleton. Read more

Cardiolipin is a specialized lipid found exclusively in the inner membrane of mitochondria. We have used electron tomography to characterize morphological defects to mitochondrial cristae as well as abnormalities in the distribution of ATP synthase caused by a deficit in cardiolipin that leads to Barth's syndrome. Read more

The adaptive immune response is initiated when naive T-cells recognize a specific antigen on the surface of an antigen presenting cell. We have been studying this process using electron tomography and have discovered a surprising release of vesicles at a specialized zone at the intercellular interface. Read more

Phi12 is a bacteriophage belonging to the family of cystoviridae. We have used cryo-electron tomography and sub-tomogram averaging to analyze the 3D structure of the surface glycoprotein responsible for host recognition and infection. Read more

Research Interests

Transmembrane Ion Transport and Structure of Cellular Assemblies by Electron Crystallography and Electron Tomography

Research Keywords

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

Deducing the Symmetry of Helical Assemblies: Applications to Membrane Proteins
Coudray, Nicolas; Lasala, Ralph; Zhang, Zhening; Clark, Kathy M; Dumont, Mark E; Stokes, David L. Deducing the Symmetry of Helical Assemblies: Applications to Membrane Proteins. Journal of structural biology. 2016 May 30;195(2):167-178 (2125192)

Structure of the SLC4 transporter Bor1p in an inward-facing conformation
Coudray, Nicolas; Seyler, Sean; Lasala, Ralph; Zhang, Zhening; Clark, Kathy M; Dumont, Mark E; Rohou, Alexis; Beckstein, Oliver; Stokes, David L. Structure of the SLC4 transporter Bor1p in an inward-facing conformation. Protein science. 2016 Oct 7;:?-? (2274322)

Purification and analysis of endogenous human RNA exosome complexes
Domanski, Michal; Upla, Paula; Rice, William J; Molloy, Kelly R; Ketaren, Natalia E; Stokes, David L; Jensen, Torben Heick; Rout, Michael P; LaCava, John. Purification and analysis of endogenous human RNA exosome complexes. RNA. 2016 Jul 11;22(9):1467-1475 (2180012)

Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform
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. Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform. Cell. 2016 Nov;167(5):1215-1228.e25 (2310832)

Polarized release of T-cell-receptor-enriched microvesicles at the immunological synapse
Choudhuri, Kaushik; Llodra, Jaime; Roth, Eric W; Tsai, Jones; Gordo, Susana; Wucherpfennig, Kai W; Kam, Lance C; Stokes, David L; Dustin, Michael L. Polarized release of T-cell-receptor-enriched microvesicles at the immunological synapse. Nature. 2014 Feb 2;507(7490):118-123 (820872)