David Bulkley, PhD
RESEARCHER
Biochemistry and Biophysics
School of Medicine

Grants and Projects

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• Cryo-EM structures of a serotonin gated ion channel, NIH, 2015-2017

Publications (31)

Top publication keywords:
Spike Glycoprotein, CoronavirusThermus thermophilusReceptors, IgGApoferritinsElectronsRibosomesGlutamate Carboxypeptidase IIPatched-1 ReceptorCryoelectron MicroscopyPolycystic Kidney, Autosomal DominantAntibodies, NeutralizingTRPP Cation ChannelsSingle-Domain AntibodiesRibosome Subunits, Small, BacterialGiant Cells

• PET Imaging Using 89Zr Labeled StarPEG Nanocarriers Reveals Heterogeneous Enhanced Permeability and Retention (EPR) in Prostate Cancer.
  Molecular cancer therapeutics 2024 Meher N, Bidkar AP, Wadhwa A, Bobba KN, Dhrona S, Dasari C, Mu C, Fong COY, Cámara JA, Ali U, Basak M, Bulkley D, Steri V, Fontaine SD, Zhu J, Oskowitz A, Aggarwal RR, Sriram R, Chou J, Wilson DM, Seo…
• High-resolution single-particle imaging at 100-200 keV with the Gatan Alpine direct electron detector.
  Journal of structural biology 2024 Chan LM, Courteau BJ, Maker A, Wu M, Basanta B, Mehmood H, Bulkley D, Joyce D, Lee BC, Mick S, Czarnik C, Gulati S, Lander GC, Verba KA
• Prostate-Specific Membrane Antigen Targeted StarPEG Nanocarrier for Imaging and Therapy of Prostate Cancer.
  Advanced healthcare materials 2024 Meher N, Ashley GW, Bobba KN, Wadhwa A, Bidkar AP, Dasari C, Mu C, Sankaranarayanan RA, Serrano JAC, Raveendran A, Bulkley DP, Aggarwal R, Greenland NY, Oskowitz A, Wilson DM, Seo Y, Santi DV, …
• IgG hexamers initiate complement-dependent acute lung injury.
  The Journal of clinical investigation 2024 Cleary SJ, Seo Y, Tian JJ, Kwaan N, Bulkley DP, Bentlage AE, Vidarsson G, Boilard É, Spirig R, Zimring JC, Looney MR
• High-resolution single-particle imaging at 100-200 keV with the Gatan Alpine direct electron detector.
  bioRxiv : the preprint server for biology 2024 Chan LM, Courteau BJ, Maker A, Wu M, Basanta B, Mehmood H, Bulkley D, Joyce D, Lee BC, Mick S, Gulati S, Lander GC, Verba KA

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• IgG hexamers initiate acute lung injury.
  bioRxiv : the preprint server for biology 2024 Cleary SJ, Seo Y, Tian JJ, Kwaan N, Bulkley DP, Bentlage AEH, Vidarsson G, Boilard É, Spirig R, Zimring JC, Looney MR
• Nonlinear compliance of NOMPC gating spring and its implication in mechanotransduction.
  Biophysical Journal 2023 Yukun Wang, Peng Jin, Avinash Kumar, David Bulkley, Lily Y. Jan, Yifan Cheng, Yuh-Nung Jan, Yongli Zhang
• Practical considerations for using K3 cameras in CDS mode for high-resolution and high-throughput single particle cryo-EM.
  Journal of structural biology 2021 Sun M, Azumaya CM, Tse E, Bulkley DP, Harrington MB, Gilbert G, Frost A, Southworth D, Verba KA, Cheng Y, Agard DA
• Structural insight into SARS-CoV-2 neutralizing antibodies and modulation of syncytia.
  Cell 2021 Asarnow D, Wang B, Lee WH, Hu Y, Huang CW, Faust B, Ng PML, Ngoh EZX, Bohn M, Bulkley D, Pizzorno A, Ary B, Tan HC, Lee CY, Minhat RA, Terrier O, Soh MK, Teo FJ, Yeap YYC, Seah SGK, Chan CEZ, Connelly…
• An ultrapotent synthetic nanobody neutralizes SARS-CoV-2 by stabilizing inactive Spike.
  Science (New York, N.Y.) 2020 Schoof M, Faust B, Saunders RA, Sangwan S, Rezelj V, Hoppe N, Boone M, Billesbølle CB, Puchades C, Azumaya CM, Kratochvil HT, Zimanyi M, Deshpande I, Liang J, Dickinson S, Nguyen HC, Chio CM, Merz GE,…
• Hedgehog pathway activation through nanobody-mediated conformational blockade of the Patched sterol conduit.
  Proceedings of the National Academy of Sciences of the United States of America 2020 Zhang Y, Lu WJ, Bulkley DP, Liang J, Ralko A, Han S, Roberts KJ, Li A, Cho W, Cheng Y, Manglik A, Beachy PA
• An ultra-potent synthetic nanobody neutralizes SARS-CoV-2 by locking Spike into an inactive conformation.
  bioRxiv : the preprint server for biology 2020 Schoof M, Faust B, Saunders RA, Sangwan S, Rezelj V, Hoppe N, Boone M, Billesbølle CB, Puchades C, Azumaya CM, Kratochvil HT, Zimanyi M, Deshpande I, Liang J, Dickinson S, Nguyen HC, Chio CM, Merz GE,…
• Bivalent binding of a fully human IgG to the SARS-CoV-2 spike proteins reveals mechanisms of potent neutralization.
  bioRxiv : the preprint server for biology 2020 Wang B, Asarnow D, Lee WH, Huang CW, Faust B, Ng PML, Ngoh EZX, Bohn M, Bulkley D, Pizzorno A, Tan HC, Lee CY, Minhat RA, Terrier O, Soh MK, Teo FJ, Yeap YYC, Hu Y, Seah SGK, Maurer-Stroh S, Renia L, …
• Ion transport and regulation in a synaptic vesicle glutamate transporter.
  Science (New York, N.Y.) 2020 Li F, Eriksen J, Finer-Moore J, Chang R, Nguyen P, Bowen A, Myasnikov A, Yu Z, Bulkley D, Cheng Y, Edwards RH, Stroud RM
• Abstract OR-16: High Resolution Cryo-Electron Microscopy and New Direct Electron Detector from Gatan - K3.
  International Journal of Biomedicine 2019 Alexander Myasnikov, Shawn Zheng, David Bulkley, Yifan Cheng, David Agard
• Structural Basis for Cholesterol Transport-like Activity of the Hedgehog Receptor Patched.
  Cell 2018 Zhang Y, Bulkley DP, Xin Y, Roberts KJ, Asarnow DE, Sharma A, Myers BR, Cho W, Cheng Y, Beachy PA
• K3 - A First Look at The New Direct Electron Detection Camera from Gatan Company.
  Microscopy and Microanalysis 2018 Alexander Myasnikov, Shawn Zheng, David Bulkley, Yifan Cheng, David Agard
• A simple and robust procedure for preparing graphene-oxide cryo-EM grids.
  Journal of structural biology 2018 Palovcak E, Wang F, Zheng SQ, Yu Z, Li S, Betegon M, Bulkley D, Agard DA, Cheng Y
• Hydrophobic pore gates regulate ion permeation in polycystic kidney disease 2 and 2L1 channels.
  Nature communications 2018 Zheng W, Yang X, Hu R, Cai R, Hofmann L, Wang Z, Hu Q, Liu X, Bulkley D, Yu Y, Tang J, Flockerzi V, Cao Y, Cao E, Chen XZ
• Cryo-EM structure of the Mechanotransduction Channel NOMPC.
  Biophysical Journal 2018 Peng Jin, David Bulkley, Yanmeng Guo, Wei Zhang, Zhenhao Guo, Walter Huynh, Shenping Wu, Shan Meltzer, Tong Cheng, Lily Yeh Jan, Yuh-Nung Jan, Yifan Cheng
• Graphene-Oxide Substrate for High-Resolution Single Particle Cryo-EM.
  Biophysical Journal 2018 Eugene Palovcak, David Bulkley, Shawn Zheng, Feng Wang, David Agard, Yifan Cheng
• Cryo-EM structures of the TMEM16A calcium-activated chloride channel.
  Nature 2017 Dang S, Feng S, Tien J, Peters CJ, Bulkley D, Lolicato M, Zhao J, Zuberbühler K, Ye W, Qi L, Chen T, Craik CS, Jan YN, Minor DL, Cheng Y, Jan LY
• Electron cryo-microscopy structure of the mechanotransduction channel NOMPC.
  Nature 2017 Jin P, Bulkley D, Guo Y, Zhang W, Guo Z, Huynh W, Wu S, Meltzer S, Cheng T, Jan LY, Jan YN, Cheng Y
• The Structure of the Polycystic Kidney Disease Channel PKD2 in Lipid Nanodiscs.
  Cell 2016 Shen PS, Yang X, DeCaen PG, Liu X, Bulkley D, Clapham DE, Cao E
• Conformational changes of elongation factor G on the ribosome during tRNA translocation.
  Cell 2015 Lin J, Gagnon MG, Bulkley D, Steitz TA
• Amicoumacin a inhibits translation by stabilizing mRNA interaction with the ribosome.
  Molecular cell 2014 Polikanov YS, Osterman IA, Szal T, Tashlitsky VN, Serebryakova MV, Kusochek P, Bulkley D, Malanicheva IA, Efimenko TA, Efremenkova OV, Konevega AL, Shaw KJ, Bogdanov AA, Rodnina MV, Dontsova OA, …
• Crystal structure of elongation factor 4 bound to a clockwise ratcheted ribosome.
  Science (New York, N.Y.) 2014 Gagnon MG, Lin J, Bulkley D, Steitz TA
• Structural basis for the rescue of stalled ribosomes: structure of YaeJ bound to the ribosome.
  Science (New York, N.Y.) 2012 Gagnon MG, Seetharaman SV, Bulkley D, Steitz TA
• Structural Studies of the Functional Complexes of the 50S and 70S Ribosome, a Major Antibiotic Target.
  Macromolecular Crystallography 2012 Thomas A. Steitz, Gregor Blaha, C. Axel Innis, Robin Evans Stanley, David Bulkley
• Structural studies of complexes of the 70S ribosome.
  Ribosomes 2011 C. Axel Innis, Gregor Blaha, David Bulkley, Thomas A. Steitz
• Revisiting the structures of several antibiotics bound to the bacterial ribosome.
  Proceedings of the National Academy of Sciences of the United States of America 2010 Bulkley D, Innis CA, Blaha G, Steitz TA