David L. Stokes - Publications

Affiliations: 
Basic Medical Science New York University, New York, NY, United States 
Area:
General Biophysics, Molecular Biology

63 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Upla P, Kim SJ, Sampathkumar P, Dutta K, Cahill SM, Chemmama IE, Williams R, Bonanno JB, Rice WJ, Stokes DL, Cowburn D, Almo SC, Sali A, Rout MP, Fernandez-Martinez J. Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex. Structure (London, England : 1993). PMID 28162953 DOI: 10.1016/J.Str.2017.01.006  0.52
2016 Fernandez-Martinez J, Kim SJ, Shi Y, Upla P, Pellarin R, Gagnon M, Chemmama IE, Wang J, Nudelman I, Zhang W, Williams R, Rice WJ, Stokes DL, Zenklusen D, Chait BT, et al. Structure and Function of the Nuclear Pore Complex Cytoplasmic mRNA Export Platform. Cell. PMID 27839866 DOI: 10.1016/J.Cell.2016.10.028  0.52
2016 Domanski M, Upla P, Rice WJ, Molloy KR, Ketaren NE, Stokes DL, Jensen TH, Rout MP, LaCava J. Purification and analysis of endogenous human RNA exosome complexes. Rna (New York, N.Y.). PMID 27402899 DOI: 10.1261/Rna.057760.116  0.52
2015 Lasala R, Coudray N, Abdine A, Zhang Z, Lopez-Redondo M, Kirshenbaum R, Alexopoulos J, Zolnai Z, Stokes DL, Ubarretxena-Belandia I. Sparse and incomplete factorial matrices to screen membrane protein 2D crystallization. Journal of Structural Biology. 189: 123-34. PMID 25478971 DOI: 10.1016/j.jsb.2014.11.008  0.52
2014 Orlando BJ, McDougle DR, Lucido MJ, Eng ET, Graham LA, Schneider C, Stokes DL, Das A, Malkowski MG. Cyclooxygenase-2 catalysis and inhibition in lipid bilayer nanodiscs. Archives of Biochemistry and Biophysics. 546: 33-40. PMID 24503478 DOI: 10.1016/J.Abb.2014.01.026  0.52
2014 Choudhuri K, Llodrá J, Roth EW, Tsai J, Gordo S, Wucherpfennig KW, Kam LC, Stokes DL, Dustin ML. Polarized release of T-cell-receptor-enriched microvesicles at the immunological synapse. Nature. 507: 118-23. PMID 24487619 DOI: 10.1038/Nature12951  0.52
2014 Coudray N, Lasala R, Zhang Z, Zolnai Z, Ubarretxena I, Stokes D. Two-dimensional crystallization of membrane proteins: Screening strategies Microscopy and Microanalysis. 20: 1210-1211. DOI: 10.1017/S1431927614007788  0.52
2013 Choi WS, Rice WJ, Stokes DL, Coller BS. Three-dimensional reconstruction of intact human integrin αIIbβ3: new implications for activation-dependent ligand binding. Blood. 122: 4165-71. PMID 24136164 DOI: 10.1182/blood-2013-04-499194  0.52
2013 Sampathkumar P, Kim SJ, Upla P, Rice WJ, Phillips J, Timney BL, Pieper U, Bonanno JB, Fernandez-Martinez J, Hakhverdyan Z, Ketaren NE, Matsui T, Weiss TM, Stokes DL, Sauder JM, et al. Structure, dynamics, evolution, and function of a major scaffold component in the nuclear pore complex. Structure (London, England : 1993). 21: 560-71. PMID 23499021 DOI: 10.1016/J.Str.2013.02.005  0.52
2013 Pieper U, Schlessinger A, Kloppmann E, Chang GA, Chou JJ, Dumont ME, Fox BG, Fromme P, Hendrickson WA, Malkowski MG, Rees DC, Stokes DL, Stowell MH, Wiener MC, Rost B, et al. Coordinating the impact of structural genomics on the human α-helical transmembrane proteome. Nature Structural & Molecular Biology. 20: 135-8. PMID 23381628 DOI: 10.1038/Nsmb.2508  0.52
2013 Coudray N, Valvo S, Hu M, Lasala R, Kim C, Vink M, Zhou M, Provasi D, Filizola M, Tao J, Fang J, Penczek PA, Ubarretxena-Belandia I, Stokes DL. Inward-facing conformation of the zinc transporter YiiP revealed by cryoelectron microscopy. Proceedings of the National Academy of Sciences of the United States of America. 110: 2140-5. PMID 23341604 DOI: 10.1073/Pnas.1215455110  0.52
2013 Stokes DL, Ubarretxena-Belandia I, Gonen T, Engel A. High-throughput methods for electron crystallography. Methods in Molecular Biology (Clifton, N.J.). 955: 273-96. PMID 23132066 DOI: 10.1007/978-1-62703-176-9_15  0.52
2013 Allen GS, Stokes DL. Modeling, docking, and fitting of atomic structures to 3D maps from cryo-electron microscopy. Methods in Molecular Biology (Clifton, N.J.). 955: 229-41. PMID 23132064 DOI: 10.1007/978-1-62703-176-9_13  0.52
2012 Schlame M, Acehan D, Berno B, Xu Y, Valvo S, Ren M, Stokes DL, Epand RM. The physical state of lipid substrates provides transacylation specificity for tafazzin. Nature Chemical Biology. 8: 862-9. PMID 22941046 DOI: 10.1038/Nchembio.1064  0.52
2012 Fernandez-Martinez J, Phillips J, Sekedat MD, Diaz-Avalos R, Velazquez-Muriel J, Franke JD, Williams R, Stokes DL, Chait BT, Sali A, Rout MP. Structure-function mapping of a heptameric module in the nuclear pore complex. The Journal of Cell Biology. 196: 419-34. PMID 22331846 DOI: 10.1083/Jcb.201109008  0.52
2012 Henderson R, Sali A, Baker ML, Carragher B, Devkota B, Downing KH, Egelman EH, Feng Z, Frank J, Grigorieff N, Jiang W, Ludtke SJ, Medalia O, Penczek PA, Rosenthal PB, ... ... Stokes DL, et al. Outcome of the first electron microscopy validation task force meeting. Structure (London, England : 1993). 20: 205-14. PMID 22325770 DOI: 10.1016/J.Str.2011.12.014  0.52
2011 Nans A, Mohandas N, Stokes DL. Native ultrastructure of the red cell cytoskeleton by cryo-electron tomography. Biophysical Journal. 101: 2341-50. PMID 22098732 DOI: 10.1016/j.bpj.2011.09.050  0.4
2011 Allen GS, Wu CC, Cardozo T, Stokes DL. The architecture of CopA from Archeaoglobus fulgidus studied by cryo-electron microscopy and computational docking. Structure (London, England : 1993). 19: 1219-32. PMID 21820315 DOI: 10.1016/J.Str.2011.05.014  0.52
2011 Acehan D, Malhotra A, Xu Y, Ren M, Stokes DL, Schlame M. Cardiolipin affects the supramolecular organization of ATP synthase in mitochondria. Biophysical Journal. 100: 2184-92. PMID 21539786 DOI: 10.1016/J.Bpj.2011.03.031  0.52
2011 Leo-Macias A, Katz G, Wei H, Alimova A, Katz A, Rice WJ, Diaz-Avalos R, Hu GB, Stokes DL, Gottlieb P. Toroidal surface complexes of bacteriophage ϕ12 are responsible for host-cell attachment. Virology. 414: 103-9. PMID 21489589 DOI: 10.1016/j.virol.2011.03.020  0.52
2011 Nans A, Einheber S, Salzer JL, Stokes DL. Electron tomography of paranodal septate-like junctions and the associated axonal and glial cytoskeletons in the central nervous system. Journal of Neuroscience Research. 89: 310-9. PMID 21259318 DOI: 10.1002/Jnr.22561  0.52
2011 Glaves JP, Trieber CA, Ceholski DK, Stokes DL, Young HS. Phosphorylation and mutation of phospholamban alter physical interactions with the sarcoplasmic reticulum calcium pump. Journal of Molecular Biology. 405: 707-23. PMID 21108950 DOI: 10.1016/J.Jmb.2010.11.014  0.52
2010 Diaz R, Rice WJ, Stokes DL. Fourier-Bessel reconstruction of helical assemblies. Methods in Enzymology. 482: 131-65. PMID 20888960 DOI: 10.1016/S0076-6879(10)82005-1  0.52
2010 Stokes DL, Rice WJ, Hu M, Kim C, Ubarretxena-Belandia I. Two-dimensional crystallization of integral membrane proteins for electron crystallography. Methods in Molecular Biology (Clifton, N.J.). 654: 187-205. PMID 20665267 DOI: 10.1007/978-1-60761-762-4_10  0.52
2010 Tucker JD, Siebert CA, Escalante M, Adams PG, Olsen JD, Otto C, Stokes DL, Hunter CN. Membrane invagination in Rhodobacter sphaeroides is initiated at curved regions of the cytoplasmic membrane, then forms both budded and fully detached spherical vesicles. Molecular Microbiology. 76: 833-47. PMID 20444085 DOI: 10.1111/j.1365-2958.2010.07153.x  0.52
2010 Kim C, Vink M, Hu M, Love J, Stokes DL, Ubarretxena-Belandia I. An automated pipeline to screen membrane protein 2D crystallization. Journal of Structural and Functional Genomics. 11: 155-66. PMID 20349145 DOI: 10.1007/s10969-010-9088-5  0.52
2009 Wei H, Cheng RH, Berriman J, Rice WJ, Stokes DL, Katz A, Morgan DG, Gottlieb P. Three-dimensional structure of the enveloped bacteriophage phi12: an incomplete T = 13 lattice is superposed on an enclosed T = 1 shell. Plos One. 4: e6850. PMID 19727406 DOI: 10.1371/Journal.Pone.0006850  0.52
2009 Acehan D, Khuchua Z, Houtkooper RH, Malhotra A, Kaufman J, Vaz FM, Ren M, Rockman HA, Stokes DL, Schlame M. Distinct effects of tafazzin deletion in differentiated and undifferentiated mitochondria. Mitochondrion. 9: 86-95. PMID 19114128 DOI: 10.1016/J.Mito.2008.12.001  0.52
2008 Milstein O, Tseng SY, Starr T, Llodra J, Nans A, Liu M, Wild MK, van der Merwe PA, Stokes DL, Reisner Y, Dustin ML. Nanoscale increases in CD2-CD48-mediated intermembrane spacing decrease adhesion and reorganize the immunological synapse. The Journal of Biological Chemistry. 283: 34414-22. PMID 18826951 DOI: 10.1074/Jbc.M804756200  0.4
2008 Wu CC, Rice WJ, Stokes DL. Structure of a copper pump suggests a regulatory role for its metal-binding domain. Structure (London, England : 1993). 16: 976-85. PMID 18547529 DOI: 10.1016/j.str.2008.02.025  0.52
2008 Acehan D, Petzold C, Gumper I, Sabatini DD, Müller EJ, Cowin P, Stokes DL. Plakoglobin is required for effective intermediate filament anchorage to desmosomes. The Journal of Investigative Dermatology. 128: 2665-75. PMID 18496566 DOI: 10.1038/Jid.2008.141  0.52
2008 Owen GR, Acehan D, Derr KD, Rice WJ, Stokes DL. Cryoelectron tomography of isolated desmosomes. Biochemical Society Transactions. 36: 173-9. PMID 18363558 DOI: 10.1042/Bst0360173  0.52
2008 Hu GB, Wei H, Rice WJ, Stokes DL, Gottlieb P. Electron cryo-tomographic structure of cystovirus phi 12. Virology. 372: 1-9. PMID 18022662 DOI: 10.1016/j.virol.2007.10.013  0.52
2008 Hu GB, Rice WJ, Dröse S, Altendorf K, Stokes DL. Three-dimensional structure of the KdpFABC complex of Escherichia coli by electron tomography of two-dimensional crystals. Journal of Structural Biology. 161: 411-8. PMID 17945510 DOI: 10.1016/j.jsb.2007.09.006  0.52
2007 Acehan D, Xu Y, Stokes DL, Schlame M. Comparison of lymphoblast mitochondria from normal subjects and patients with Barth syndrome using electron microscopic tomography. Laboratory Investigation; a Journal of Technical Methods and Pathology. 87: 40-8. PMID 17043667 DOI: 10.1038/Labinvest.3700480  0.52
2007 Pomfret AJ, Rice WJ, Stokes DL. Application of the iterative helical real-space reconstruction method to large membranous tubular crystals of P-type ATPases. Journal of Structural Biology. 157: 106-16. PMID 16879984 DOI: 10.1016/j.jsb.2006.05.012  0.52
2006 Rice WJ, Kovalishin A, Stokes DL. Role of metal-binding domains of the copper pump from Archaeoglobus fulgidus. Biochemical and Biophysical Research Communications. 348: 124-31. PMID 16876128 DOI: 10.1016/j.bbrc.2006.07.012  0.52
2006 Chen Z, Akin BL, Stokes DL, Jones LR. Cross-linking of C-terminal residues of phospholamban to the Ca2+ pump of cardiac sarcoplasmic reticulum to probe spatial and functional interactions within the transmembrane domain. The Journal of Biological Chemistry. 281: 14163-72. PMID 16554295 DOI: 10.1074/Jbc.M601338200  0.52
2006 Stokes DL, Pomfret AJ, Rice WJ, Glaves JP, Young HS. Interactions between Ca2+-ATPase and the pentameric form of phospholamban in two-dimensional co-crystals. Biophysical Journal. 90: 4213-23. PMID 16533842 DOI: 10.1529/Biophysj.105.079640  0.52
2005 Stokes DL, Delavoie F, Rice WJ, Champeil P, McIntosh DB, Lacapère JJ. Structural studies of a stabilized phosphoenzyme intermediate of Ca2+-ATPase. The Journal of Biological Chemistry. 280: 18063-72. PMID 15734741 DOI: 10.1074/jbc.M500031200  0.52
2005 Chen Z, Stokes DL, Jones LR. Role of leucine 31 of phospholamban in structural and functional interactions with the Ca2+ pump of cardiac sarcoplasmic reticulum. The Journal of Biological Chemistry. 280: 10530-9. PMID 15644311 DOI: 10.1074/Jbc.M414007200  0.52
2004 Young HS, Stokes DL. The mechanics of calcium transport. The Journal of Membrane Biology. 198: 55-63. PMID 15138745 DOI: 10.1007/S00232-004-0666-Y  0.52
2004 Hsieh C, He W, Marko M, Stokes DL. 3D tomographic map of desmosome from frozen-hydrated skin sections Microscopy and Microanalysis. 10: 1188-1189. DOI: 10.1017/S1431927604887026  0.52
2003 Chen Z, Stokes DL, Rice WJ, Jones LR. Spatial and dynamic interactions between phospholamban and the canine cardiac Ca2+ pump revealed with use of heterobifunctional cross-linking agents. The Journal of Biological Chemistry. 278: 48348-56. PMID 12972413 DOI: 10.1074/Jbc.M309545200  0.52
2003 Stokes DL, Green NM. Structure and function of the calcium pump. Annual Review of Biophysics and Biomolecular Structure. 32: 445-68. PMID 12598367 DOI: 10.1146/annurev.biophys.32.110601.142433  0.52
2002 Xu C, Rice WJ, He W, Stokes DL. A structural model for the catalytic cycle of Ca(2+)-ATPase. Journal of Molecular Biology. 316: 201-11. PMID 11829513 DOI: 10.1006/jmbi.2001.5330  0.52
2001 Young HS, Jones LR, Stokes DL. Locating phospholamban in co-crystals with Ca(2+)-ATPase by cryoelectron microscopy. Biophysical Journal. 81: 884-94. PMID 11463632 DOI: 10.1016/S0006-3495(01)75748-7  0.52
2001 Young HS, Xu C, Zhang P, Stokes DL. Locating the thapsigargin-binding site on Ca(2+)-ATPase by cryoelectron microscopy. Journal of Molecular Biology. 308: 231-40. PMID 11327764 DOI: 10.1006/Jmbi.2001.4558  0.52
2001 Rice WJ, Young HS, Martin DW, Sachs JR, Stokes DL. Structure of Na+,K+-ATPase at 11-A resolution: comparison with Ca2+-ATPase in E1 and E2 states. Biophysical Journal. 80: 2187-97. PMID 11325721 DOI: 10.1016/S0006-3495(01)76191-7  0.52
2000 Stokes DL, Wagenknecht T. Calcium transport across the sarcoplasmic reticulum structure and function of Ca2+-ATPase and the ryanodine receptor European Journal of Biochemistry. 267: 5274-5279. PMID 10951184 DOI: 10.1046/J.1432-1327.2000.01569.X  0.52
2000 Stokes DL, Green NM. Modeling a dehalogenase fold into the 8-Å density map for Ca2+-ATPase defines a new domain structure Biophysical Journal. 78: 1765-1776. PMID 10733958 DOI: 10.1016/S0006-3495(00)76727-0  0.52
1998 Young HS, Reddy LG, Jones LR, Stokes DL. Co-reconstitution and co-crystallization of phospholamban and Ca(2+)-ATPase. Annals of the New York Academy of Sciences. 853: 103-15. PMID 10603940 DOI: 10.1111/J.1749-6632.1998.Tb08260.X  0.52
1998 Shi D, Lewis MR, Young HS, Stokes DL. Three-dimensional crystals of Ca2+-ATPase from sarcoplasmic reticulum: merging electron diffraction tilt series and imaging the (h, k, 0) projection. Journal of Molecular Biology. 284: 1547-64. PMID 9878370 DOI: 10.1006/Jmbi.1998.2283  0.52
1998 Zhang P, Toyoshima C, Yonekura K, Green NM, Stokes DL. Structure of the calcium pump from sarcoplasmic reticulum at 8-A resolution Nature. 392: 835-839. PMID 9572145 DOI: 10.1038/33959  0.52
1997 Young HS, Rigaud JL, Lacapère JJ, Reddy LG, Stokes DL. How to make tubular crystals by reconstitution of detergent-solubilized Ca2(+)-ATPase. Biophysical Journal. 72: 2545-58. PMID 9168030 DOI: 10.1016/S0006-3495(97)78898-2  0.52
1996 Cheong GW, Young HS, Ogawa H, Toyoshima C, Stokes DL. Lamellar stacking in three-dimensional crystals of Ca2+-ATPase from sarcoplasmic reticulum Biophysical Journal. 70: 1689-1699. PMID 8785327 DOI: 10.1016/S0006-3495(96)79731-X  0.52
1996 Reddy LG, Jones LR, Pace RC, Stokes DL. Purified, reconstituted cardiac Ca2+-ATPase is regulated by phospholamban but not by direct phosphorylation with Ca2+/calmodulin-dependent protein kinase. The Journal of Biological Chemistry. 271: 14964-70. PMID 8663079  0.52
1995 Shi D, Hsiung HH, Pace RC, Stokes DL. Preparation and analysis of large, flat crystals of Ca2+-ATPase for electron crystallography Biophysical Journal. 68: 1152-1162. PMID 7756535 DOI: 10.1016/S0006-3495(95)80291-2  0.52
1994 Stokes DL, Taylor WR, Green NM. Structure, transmembrane topology and helix packing of P-type ion pumps Febs Letters. 346: 32-38. PMID 8206155 DOI: 10.1016/0014-5793(94)00297-5  0.52
1992 Lacapère JJ, Stokes DL, Chatenay D. Atomic force microscopy of three-dimensional membrane protein crystals. Ca-ATPase of sarcoplasmic reticulum. Biophysical Journal. 63: 303-8. PMID 1420878 DOI: 10.1016/S0006-3495(92)81600-4  0.52
1990 Stokes DL, Green NM. Comparison of frozen-hydrated and negatively stained crystals of Ca-ATPase suggests a shape for the intramembranous domain Biochemical Society Transactions. 18: 841-843. PMID 2150652 DOI: 10.1042/bst0180841  0.52
1990 Stokes DL, Green NM. Structure of CaATPase: Electron microscopy of frozen-hydrated crystals at 6 Å resolution in projection Journal of Molecular Biology. 213: 529-538. PMID 2141088 DOI: 10.1016/S0022-2836(05)80213-X  0.52
1990 Stokes DL, Green NM. Three-dimensional crystals of CaATPase from sarcoplasmic reticulum. Symmetry and molecular packing Biophysical Journal. 57: 1-14. PMID 2137017 DOI: 10.1016/S0006-3495(90)82501-7  0.52
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