David Bulkley • UCSF Profiles

David Bulkley, PhD

Title(s)	RESEARCHER, Biochemistry and Biophysics
School	School of Medicine
Address	600 16th Street, #S101 San Francisco CA 94158
ORCID	0000-0002-2535-904X
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Research

Research Activities and Funding

Cryo-EM structures of a serotonin gated ion channel
NIH F32GM113360Feb 1, 2015 - Jan 31, 2017
Role: Principal Investigator

Bibliographic

Publications

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.

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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.

IgG hexamers initiate complement-dependent acute lung injury. J Clin Invest. 2024 Mar 26. Cleary SJ, Seo Y, Tian JJ, Kwaan N, Bulkley DP, Bentlage AEH, Vidarsson G, Boilard É, Spirig R, Zimring JC, Looney MR. PMID: 38530369.

View in: PubMed Mentions: Fields:
Med Medicine (General)
High-resolution single-particle imaging at 100-200 keV with the Gatan Alpine direct electron detector. bioRxiv. 2024 Feb 23. 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. PMID: 38405886; PMCID: PMC10888765.

View in: PubMed Mentions:
IgG hexamers initiate acute lung injury. bioRxiv. 2024 Jan 27. Cleary SJ, Seo Y, Tian JJ, Kwaan N, Bulkley DP, Bentlage AEH, Vidarsson G, Boilard É, Spirig R, Zimring JC, Looney MR. PMID: 38328049; PMCID: PMC10849723.

View in: PubMed Mentions:
Nonlinear compliance of NOMPC gating spring and its implication in mechanotransduction. Biophysical Journal. 2023 Feb 1; 122(3):162a. Wang WY, Jin JP, Kumar KA, Bulkley BD, Jan JL, Cheng CY, Jan JY, Zhang ZY. .

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Practical considerations for using K3 cameras in CDS mode for high-resolution and high-throughput single particle cryo-EM. J Struct Biol. 2021 09; 213(3):107745. Sun M, Azumaya CM, Tse E, Bulkley DP, Harrington MB, Gilbert G, Frost A, Southworth D, Verba KA, Cheng Y, Agard DA. PMID: 33984504.

View in: PubMed Mentions: 13 Fields:
Cel Cell Biology Mol Molecular Biology
Translation:Animals
Structural insight into SARS-CoV-2 neutralizing antibodies and modulation of syncytia. Cell. 2021 06 10; 184(12):3192-3204.e16. 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 E, Young NJ, Maurer-Stroh S, Renia L, Hanson BJ, Rosa-Calatrava M, Manglik A, Cheng Y, Craik CS, Wang CI. PMID: 33974910; PMCID: PMC8064868.

View in: PubMed Mentions: 44 Fields:
Cel Cell Biology
Translation:Humans Animals Cells
An ultrapotent synthetic nanobody neutralizes SARS-CoV-2 by stabilizing inactive Spike. Science. 2020 12 18; 370(6523):1473-1479. 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, Thompson MC, Diwanji D, Schaefer K, Anand AA, Dobzinski N, Zha BS, Simoneau CR, Leon K, White KM, Chio US, Gupta M, Jin M, Li F, Liu Y, Zhang K, Bulkley D, Sun M, Smith AM, Rizo AN, Moss F, Brilot AF, Pourmal S, Trenker R, Pospiech T, Gupta S, Barsi-Rhyne B, Belyy V, Barile-Hill AW, Nock S, Liu Y, Krogan NJ, Ralston CY, Swaney DL, García-Sastre A, Ott M, Vignuzzi M, QCRG Structural Biology Consortium, Walter P, Manglik A. PMID: 33154106; PMCID: PMC7857409.

View in: PubMed Mentions: 209 Fields:
Sci Science
Translation:Humans Animals Cells
Hedgehog pathway activation through nanobody-mediated conformational blockade of the Patched sterol conduit. Proc Natl Acad Sci U S A. 2020 11 17; 117(46):28838-28846. Zhang Y, Lu WJ, Bulkley DP, Liang J, Ralko A, Han S, Roberts KJ, Li A, Cho W, Cheng Y, Manglik A, Beachy PA. PMID: 33139559; PMCID: PMC7682405.

View in: PubMed Mentions: 17 Fields:
Sci Science
Translation:Humans Animals Cells
An ultra-potent synthetic nanobody neutralizes SARS-CoV-2 by locking Spike into an inactive conformation. bioRxiv. 2020 Aug 17. 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, Thompson MC, Diwanji D, Schaefer K, Anand AA, Dobzinski N, Zha BS, Simoneau CR, Leon K, White KM, Chio US, Gupta M, Jin M, Li F, Liu Y, Zhang K, Bulkley D, Sun M, Smith AM, Rizo AN, Moss F, Brilot AF, Pourmal S, Trenker R, Pospiech T, Gupta S, Barsi-Rhyne B, Belyy V, Barile-Hill AW, Nock S, Liu Y, Krogan NJ, Ralston CY, Swaney DL, García-Sastre A, Ott M, Vignuzzi M, QCRG Structural Biology Consortium, Walter P, Manglik A. PMID: 32817938; PMCID: PMC7430568.

View in: PubMed Mentions: 5
Bivalent binding of a fully human IgG to the SARS-CoV-2 spike proteins reveals mechanisms of potent neutralization. bioRxiv. 2020 Jul 15. 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, Hanson BJ, Rosa-Calatrava M, Manglik A, Cheng Y, Craik CS, Wang CI. PMID: 32699850; PMCID: PMC7373131.

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Ion transport and regulation in a synaptic vesicle glutamate transporter. Science. 2020 05 22; 368(6493):893-897. 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. PMID: 32439795; PMCID: PMC7388591.

View in: PubMed Mentions: 23 Fields:
Sci Science
Translation:Animals Cells
Abstract OR-16: High Resolution Cryo-Electron Microscopy and New Direct Electron Detector from Gatan - K3. International Journal of Biomedicine. 2019 Jun 30; 9(Suppl_1):s12-s12. Myasnikov MA, Zheng ZS, Bulkley BD, Cheng CY, Agard AD. .

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Structural Basis for Cholesterol Transport-like Activity of the Hedgehog Receptor Patched. Cell. 2018 11 15; 175(5):1352-1364.e14. Zhang Y, Bulkley DP, Xin Y, Roberts KJ, Asarnow DE, Sharma A, Myers BR, Cho W, Cheng Y, Beachy PA. PMID: 30415841; PMCID: PMC6326742.

View in: PubMed Mentions: 113 Fields:
Cel Cell Biology
Translation:Humans Animals Cells
K3 - A First Look at The New Direct Electron Detection Camera from Gatan Company. Microscopy and Microanalysis. 2018 Aug 1; 24(S1):890-891. Myasnikov MA, Zheng ZS, Bulkley BD, Cheng CY, Agard AD. .

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A simple and robust procedure for preparing graphene-oxide cryo-EM grids. J Struct Biol. 2018 10; 204(1):80-84. Palovcak E, Wang F, Zheng SQ, Yu Z, Li S, Betegon M, Bulkley D, Agard DA, Cheng Y. PMID: 30017701; PMCID: PMC6119484.

View in: PubMed Mentions: 49 Fields:
Cel Cell Biology Mol Molecular Biology
Hydrophobic pore gates regulate ion permeation in polycystic kidney disease 2 and 2L1 channels. Nat Commun. 2018 06 13; 9(1):2302. 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. PMID: 29899465; PMCID: PMC5998024.

View in: PubMed Mentions: 33 Fields:
Bio Biology Sci Science
Translation:Humans Animals Cells
Graphene-Oxide Substrate for High-Resolution Single Particle Cryo-EM. Biophysical Journal. 2018 Feb 1; 114(3):11a. Palovcak PE, Bulkley BD, Zheng ZS, Wang WF, Agard AD, Cheng CY. .

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Cryo-EM structure of the Mechanotransduction Channel NOMPC. Biophysical Journal. 2018 Feb 1; 114(3):22a. Jin JP, Bulkley BD, Guo GY, Zhang ZW, Guo GZ, Huynh HW, Wu WS, Meltzer MS, Cheng CT, Jan JL, Jan JY, Cheng CY. .

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Cryo-EM structures of the TMEM16A calcium-activated chloride channel. Nature. 2017 12 21; 552(7685):426-429. 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. PMID: 29236684; PMCID: PMC5750132.

View in: PubMed Mentions: 163 Fields:
Sci Science
Translation:Humans Animals Cells
Electron cryo-microscopy structure of the mechanotransduction channel NOMPC. Nature. 2017 07 06; 547(7661):118-122. Jin P, Bulkley D, Guo Y, Zhang W, Guo Z, Huynh W, Wu S, Meltzer S, Cheng T, Jan LY, Jan YN, Cheng Y. PMID: 28658211; PMCID: PMC5669069.

View in: PubMed Mentions: 109 Fields:
Sci Science
Translation:Animals Cells
The Structure of the Polycystic Kidney Disease Channel PKD2 in Lipid Nanodiscs. Cell. 2016 Oct 20; 167(3):763-773.e11. Shen PS, Yang X, DeCaen PG, Liu X, Bulkley D, Clapham DE, Cao E. PMID: 27768895; PMCID: PMC6055481.

View in: PubMed Mentions: 113 Fields:
Cel Cell Biology
Translation:Humans Animals Cells
Conformational changes of elongation factor G on the ribosome during tRNA translocation. Cell. 2015 Jan 15; 160(1-2):219-27. Lin J, Gagnon MG, Bulkley D, Steitz TA. PMID: 25594181; PMCID: PMC4297320.

View in: PubMed Mentions: 72 Fields:
Cel Cell Biology
Translation:Cells
Amicoumacin a inhibits translation by stabilizing mRNA interaction with the ribosome. Mol Cell. 2014 Nov 20; 56(4):531-40. 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, Mankin AS, Steitz TA, Sergiev PV. PMID: 25306919; PMCID: PMC4253140.

View in: PubMed Mentions: 43 Fields:
Cel Cell Biology Mol Molecular Biology
Translation:Cells
Crystal structure of elongation factor 4 bound to a clockwise ratcheted ribosome. Science. 2014 Aug 08; 345(6197):684-7. Gagnon MG, Lin J, Bulkley D, Steitz TA. PMID: 25104389; PMCID: PMC9153294.

View in: PubMed Mentions: 26 Fields:
Sci Science
Translation:Cells
Structural basis for the rescue of stalled ribosomes: structure of YaeJ bound to the ribosome. Science. 2012 Mar 16; 335(6074):1370-2. Gagnon MG, Seetharaman SV, Bulkley D, Steitz TA. PMID: 22422986; PMCID: PMC3377438.

View in: PubMed Mentions: 56 Fields:
Sci Science
Translation:Cells
Structural Studies of the Functional Complexes of the 50S and 70S Ribosome, a Major Antibiotic Target. Macromolecular Crystallography. 2012 Jan 1; 135-148. Steitz ST, Blaha BG, Innis IC, Stanley SR, Bulkley BD. .

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Structural studies of complexes of the 70S ribosome. Ribosomes. 2011 Jan 1; 31-43. Innis IC, Blaha BG, Bulkley BD, Steitz ST. .

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Revisiting the structures of several antibiotics bound to the bacterial ribosome. Proc Natl Acad Sci U S A. 2010 Oct 05; 107(40):17158-63. Bulkley D, Innis CA, Blaha G, Steitz TA. PMID: 20876130; PMCID: PMC2951403.

View in: PubMed Mentions: 127 Fields:
Sci Science
Translation:Cells