David Bulkley, PhD

Title(s)RESEARCHER, Biochemistry and Biophysics
SchoolSchool of Medicine
Address600 16th Street, #S101
San Francisco CA 94158
ORCID ORCID Icon0000-0002-2535-904X Additional info
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    Collapse Research 
    Collapse Research Activities and Funding
    Cryo-EM structures of a serotonin gated ion channel
    NIH F32GM113360Feb 1, 2015 - Jan 31, 2017
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse 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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    Altmetrics Details 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.
    1. 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: 9     Fields:    Translation:Animals
    2. 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: 33     Fields:    Translation:HumansAnimalsCells
    3. 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: 183     Fields:    Translation:HumansAnimalsCells
    4. 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: 14     Fields:    Translation:HumansAnimalsCells
    5. 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: 1  
    6. 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.
      View in: PubMed   Mentions:
    7. 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: 18     Fields:    Translation:AnimalsCells
    8. 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. .
      View in: Publisher Site   Mentions:
    9. 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: 98     Fields:    Translation:HumansAnimalsCells
    10. 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. .
      View in: Publisher Site   Mentions:
    11. 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: 42     Fields:    
    12. 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: 31     Fields:    Translation:HumansAnimalsCells
    13. 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. .
      View in: Publisher Site   Mentions:
    14. 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. .
      View in: Publisher Site   Mentions:
    15. 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: 145     Fields:    Translation:HumansAnimalsCells
    16. 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: 91     Fields:    Translation:AnimalsCells
    17. 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: 105     Fields:    Translation:HumansAnimalsCells
    18. 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: 69     Fields:    Translation:Cells
    19. 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: 39     Fields:    Translation:Cells
    20. 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:    Translation:Cells
    21. 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: 55     Fields:    Translation:Cells
    22. 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. .
      View in: Publisher Site   Mentions:
    23. Structural studies of complexes of the 70S ribosome. Ribosomes. 2011 Jan 1; 31-43. Innis IC, Blaha BG, Bulkley BD, Steitz ST. .
      View in: Publisher Site   Mentions:
    24. 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: 121     Fields:    Translation:Cells
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