David Agard, PhD
Professor
Biochemistry and Biophysics
School of Medicine

Education & Training

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• Postdoctoral Studies Graduate Division - Biochemistry University of California, San Francisco

Grants and Projects

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• Tau Metabolism in FTD: From Gene Mutations to Molecular Chaperones and Lysosomal Proteases, NIH, 2021-2026
• Structure and Mechanism: Hsp90 proteostasis, cilia biogenesis and the jumbo phage ?nucleus?, NIH, 2016-2026
• Molecular Biophysics Training Grant, NIH, 1988-2023
• The Yeast Centrosome - Structure Assembly & Function, NIH, 2014-2020
• Characterization of a bacteriophage tubulin involved in viral replication, NIH, 2013-2018
• Centrosome structure and mechanism of MT nucleation by gamma-tubulin complexes, NIH, 1983-2016
• Structural Basis of Protein Homeostasis, NIH, 2012-2016
• Comprehensive Biology: Exploiting the Yeast Genome, NIH, 1996-2016
• Bio-Organic Biomedical Mass Spectrometry Resource, NIH, 1982-2015
• National Biomedical NMR Resource at Madison, NIH, 1985-2015
• A Synchroton Radiation Structural Biology Resource, NIH, 1980-2015
• Macromolecular Diffraction Resource: MacCHESS, NIH, 1983-2013
• National Resource for Automated Molecular Microscopy, NIH, 2002-2012
• BioCAT - Biophysics Collaborative Access Team, NIH, 1995-2012
• Structure and Dynamics of Nuclear Receptors, NIH, 2000-2006
• Faseb Conference: Protein Folding and Assembly in Cells, NIH, 2000-2001
• Gatan Imaging Energy Filter with Ccd Camera for Ivem, NIH, 2000-2001

Publications (296)

Top publication keywords:
Microscopy, ElectronHSP90 Heat-Shock ProteinsReceptors, GlucocorticoidCentrosomeElectron Microscope TomographySerine EndopeptidasesCentriolesProtein ConformationMicrotubulesModels, MolecularHSP70 Heat-Shock ProteinsGraphiteTubulinCryoelectron MicroscopyProtein Folding

• Functionalized graphene-oxide grids enable high-resolution cryo-EM structures of the SNF2h-nucleosome complex without crosslinking.
  Nature communications 2024 Chio US, Palovcak E, Smith AAA, Autzen H, Muñoz EN, Yu Z, Wang F, Agard DA, Armache JP, Narlikar GJ, Cheng Y
• Poc1 is a basal body inner junction protein that promotes triplet microtubule integrity and interconnections.
  bioRxiv : the preprint server for biology 2023 Ruehle MD, Li S, Agard DA, Pearson CG
• Cryo-EM reveals how Hsp90 and FKBP immunophilins co-regulate the glucocorticoid receptor.
  Nature structural & molecular biology 2023 Noddings CM, Johnson JL, Agard DA
• The next decade in structural biology.
  Structure (London, England : 1993) 2023 Walsh MA, Nannenga BL, Gonen T, Sexton PM, Wootten D, Chiu W, Sun F, Carragher B, Potter CS, Agard D, Burley SK
• De novo protein identification in mammalian sperm using in situ cryoelectron tomography and AlphaFold2 docking.
  Cell 2023 Chen Z, Shiozaki M, Haas KM, Skinner WM, Zhao S, Guo C, Polacco BJ, Yu Z, Krogan NJ, Lishko PV, Kaake RM, Vale RD, Agard DA

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• Next-generation proteomics for quantitative Jumbophage-bacteria interaction mapping.
  Nature communications 2023 Fossati A, Mozumdar D, Kokontis C, Mèndez-Moran M, Nieweglowska E, Pelin A, Li Y, Guo B, Krogan NJ, Agard DA, Bondy-Denomy J, Swaney DL
• Functionalized graphene-oxide grids enable high-resolution cryo-EM structures of the SNF2h-nucleosome complex without crosslinking.
  bioRxiv : the preprint server for biology 2023 Chio US, Palovcak E, Autzen AAA, Autzen HE, Muñoz EN, Yu Z, Wang F, Agard DA, Armache JP, Narlikar GJ, Cheng Y
• Hsp90 provides a platform for kinase dephosphorylation by PP5.
  Nature communications 2023 Jaime-Garza M, Nowotny CA, Coutandin D, Wang F, Tabios M, Agard DA
• Next-generation interaction proteomics for quantitative Jumbophage-bacteria interaction mapping.
  bioRxiv : the preprint server for biology 2023 Fossati A, Mozumdar D, Kokontis C, Mèndez-Moran M, Nieweglowska E, Pelin A, Li Y, Guo B, Krogan NJ, Agard DA, Bondy-Denomy J, Swaney DL
• The ϕPA3 phage nucleus is enclosed by a self-assembling 2D crystalline lattice.
  Nature communications 2023 Nieweglowska ES, Brilot AF, Méndez-Moran M, Kokontis C, Baek M, Li J, Cheng Y, Baker D, Bondy-Denomy J, Agard DA
• Cryo-EM reveals how Hsp90 and FKBP immunophilins co-regulate the Glucocorticoid Receptor.
  bioRxiv : the preprint server for biology 2023 Noddings CM, Johnson JL, Agard DA
• Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline.
  Journal of proteome research 2023 Hoopmann MR, Shteynberg DD, Zelter A, Riffle M, Lyon AS, Agard DA, Luan Q, Nolen BJ, MacCoss MJ, Davis TN, Moritz RL
• In situ cryo-electron tomography reveals the asymmetric architecture of mammalian sperm axonemes.
  Nature structural & molecular biology 2023 Chen Z, Greenan GA, Shiozaki M, Liu Y, Skinner WM, Zhao X, Zhao S, Yan R, Yu Z, Lishko PV, Agard DA, Vale RD
• Solution of the protein structure prediction problem at last: crucial innovations and next frontiers.
  Faculty reviews 2022 Agard DA, Bowman GR, DeGrado W, Dokholyan NV, Zhou HX
• Interactions between mTORC2 core subunits Rictor and mSin1 dictate selective and context-dependent phosphorylation of substrate kinases SGK1 and Akt.
  The Journal of biological chemistry 2022 Yu Z, Chen J, Takagi E, Wang F, Saha B, Liu X, Joubert LM, Gleason CE, Jin M, Li C, Nowotny C, Agard D, Cheng Y, Pearce D
• AreTomo: An integrated software package for automated marker-free, motion-corrected cryo-electron tomographic alignment and reconstruction.
  Journal of structural biology: X 2022 Zheng S, Wolff G, Greenan G, Chen Z, Faas FGA, Bárcena M, Koster AJ, Cheng Y, Agard DA
• Author Correction: Structures of the HER2-HER3-NRG1β complex reveal a dynamic dimer interface.
  Nature 2022 Diwanji D, Trenker R, Thaker TM, Wang F, Agard DA, Verba KA, Jura N
• Electron cryo-tomography structure of axonemal doublet microtubule from Tetrahymena thermophila.
  Life science alliance 2021 Li S, Fernandez JJ, Fabritius AS, Agard DA, Winey M
• Structure of Hsp90-Hsp70-Hop-GR reveals the Hsp90 client-loading mechanism.
  Nature 2021 Wang RY, Noddings CM, Kirschke E, Myasnikov AG, Johnson JL, Agard DA
• Structure of Hsp90-p23-GR reveals the Hsp90 client-remodelling mechanism.
  Nature 2021 Noddings CM, Wang RY, Johnson JL, Agard DA
• Entropy-regularized deconvolution of cellular cryotransmission electron tomograms.
  Proceedings of the National Academy of Sciences of the United States of America 2021 Croxford M, Elbaum M, Arigovindan M, Kam Z, Agard D, Villa E, Sedat J
• Structures of the HER2-HER3-NRG1β complex reveal a dynamic dimer interface.
  Nature 2021 Diwanji D, Trenker R, Thaker TM, Wang F, Agard DA, Verba KA, Jura N
• Proteomic analysis of microtubule inner proteins (MIPs) in Rib72 null Tetrahymena cells reveals functional MIPs.
  Molecular biology of the cell 2021 Fabritius AS, Bayless BA, Li S, Stoddard D, Heydeck W, Ebmeier CC, Anderson L, Gunnels T, Nachiappan C, Whittall JB, Old W, Agard DA, Nicastro D, Winey M
• CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.
  Research square 2021 Gupta M, Azumaya CM, Moritz M, Pourmal S, Diallo A, Merz GE, Jang G, Bouhaddou M, Fossati A, Brilot AF, Diwanji D, Hernandez E, Herrera N, Kratochvil HT, Lam VL, Li F, Li Y, Nguyen HC, Nowotny C, …
• CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.
  bioRxiv : the preprint server for biology 2021 Gupta M, Azumaya CM, Moritz M, Pourmal S, Diallo A, Merz GE, Jang G, Bouhaddou M, Fossati A, Brilot AF, Diwanji D, Hernandez E, Herrera N, Kratochvil HT, Lam VL, Li F, Li Y, Nguyen HC, Nowotny C, …
• 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
• CM1-driven assembly and activation of yeast γ-tubulin small complex underlies microtubule nucleation.
  eLife 2021 Brilot AF, Lyon AS, Zelter A, Viswanath S, Maxwell A, MacCoss MJ, Muller EG, Sali A, Davis TN, Agard DA
• Microtubules form by progressively faster tubulin accretion, not by nucleation-elongation.
  The Journal of cell biology 2021 Rice LM, Moritz M, Agard DA
• Hsp70 chaperone blocks α-synuclein oligomer formation via a novel engagement mechanism.
  The Journal of biological chemistry 2021 Tao J, Berthet A, Citron YR, Tsiolaki PL, Stanley R, Gestwicki JE, Agard DA, McConlogue L
• [The basics of immobilisation].
  Revue de l'infirmiere 2020 Rebours I, Agard D, Messager C, Cattelin C, Barbier O, Choufani C
• Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms.
  Science (New York, N.Y.) 2020 Gordon DE, Hiatt J, Bouhaddou M, Rezelj VV, Ulferts S, Braberg H, Jureka AS, Obernier K, Guo JZ, Batra J, Kaake RM, Weckstein AR, Owens TW, Gupta M, Pourmal S, Titus EW, Cakir M, Soucheray M, McGregor…
• General and robust covalently linked graphene oxide affinity grids for high-resolution cryo-EM.
  Proceedings of the National Academy of Sciences of the United States of America 2020 Wang F, Liu Y, Yu Z, Li S, Feng S, Cheng Y, Agard DA
• A molecular pore spans the double membrane of the coronavirus replication organelle.
  Science (New York, N.Y.) 2020 Wolff G, Limpens RWAL, Zevenhoven-Dobbe JC, Laugks U, Zheng S, de Jong AWM, Koning RI, Agard DA, Grünewald K, Koster AJ, Snijder EJ, Bárcena M
• XMAP215 and γ-tubulin additively promote microtubule nucleation in purified solutions.
  Molecular biology of the cell 2020 King BR, Moritz M, Kim H, Agard DA, Asbury CL, Davis TN
• A SARS-CoV-2 protein interaction map reveals targets for drug repurposing.
  Nature 2020 Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, White KM, O'Meara MJ, Rezelj VV, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, …
• Author Correction: Sas-4 provides a scaffold for cytoplasmic complexes and tethers them in a centrosome.
  Nature communications 2020 Gopalakrishnan J, Mennella V, Blachon S, Zhai B, Smith AH, Megraw TL, Nicastro D, Gygi SP, Agard DA, Avidor-Reiss T
• A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing.
  bioRxiv : the preprint server for biology 2020 Gordon DE, Jang GM, Bouhaddou M, Xu J, Obernier K, O'Meara MJ, Guo JZ, Swaney DL, Tummino TA, Hüttenhain R, Kaake RM, Richards AL, Tutuncuoglu B, Foussard H, Batra J, Haas K, Modak M, Kim M, Haas P, …
• The mitochondrial HSP90 paralog TRAP1 forms an OXPHOS-regulated tetramer and is involved in mitochondrial metabolic homeostasis.
  BMC biology 2020 Joshi A, Dai L, Liu Y, Lee J, Ghahhari NM, Segala G, Beebe K, Jenkins LM, Lyons GC, Bernasconi L, Tsai FTF, Agard DA, Neckers L, Picard D
• Electron cryotomography of intact motile cilia defines the basal body to axoneme transition.
  The Journal of cell biology 2020 Greenan GA, Vale RD, Agard DA
• Amino and PEG-amino graphene oxide grids enrich and protect samples for high-resolution single particle cryo-electron microscopy.
  Journal of structural biology 2019 Wang F, Yu Z, Betegon M, Campbell MG, Aksel T, Zhao J, Li S, Douglas SM, Cheng Y, Agard DA
• A bacteriophage nucleus-like compartment shields DNA from CRISPR nucleases.
  Nature 2019 Mendoza SD, Nieweglowska ES, Govindarajan S, Leon LM, Berry JD, Tiwari A, Chaikeeratisak V, Pogliano J, Agard DA, Bondy-Denomy J
• Novel Small Molecules Targeting the Intrinsically Disordered Structural Ensemble of α-Synuclein Protect Against Diverse α-Synuclein Mediated Dysfunctions.
  Scientific reports 2019 Tóth G, Neumann T, Berthet A, Masliah E, Spencer B, Tao J, Jobling MF, Gardai SJ, Bertoncini CW, Cremades N, Bova M, Ballaron S, Chen XH, Mao W, Nguyen P, Tabios MC, Tambe MA, Rochet JC, Junker HD, …
• Mind the gap: Micro-expansion joints drastically decrease the bending of FIB-milled cryo-lamellae.
  Journal of structural biology 2019 Wolff G, Limpens RWAL, Zheng S, Snijder EJ, Agard DA, Koster AJ, Bárcena M
• Viral Capsid Trafficking along Treadmilling Tubulin Filaments in Bacteria.
  Cell 2019 Chaikeeratisak V, Khanna K, Nguyen KT, Sugie J, Egan ME, Erb ML, Vavilina A, Nonejuie P, Nieweglowska E, Pogliano K, Agard DA, Villa E, Pogliano J
• Electron cryo-tomography provides insight into procentriole architecture and assembly mechanism.
  eLife 2019 Li S, Fernandez JJ, Marshall WF, Agard DA
• Consideration of sample motion in cryo-tomography based on alignment residual interpolation.
  Journal of structural biology 2019 Fernandez JJ, Li S, Agard DA
• Competing protein-protein interactions regulate binding of Hsp27 to its client protein tau.
  Nature communications 2018 Freilich R, Betegon M, Tse E, Mok SA, Julien O, Agard DA, Southworth DR, Takeuchi K, Gestwicki JE
• Insights into centriole geometry revealed by cryotomography of doublet and triplet centrioles.
  eLife 2018 Greenan GA, Keszthelyi B, Vale RD, Agard DA
• The Psychiatric Cell Map Initiative: A Convergent Systems Biological Approach to Illuminating Key Molecular Pathways in Neuropsychiatric Disorders.
  Cell 2018 Willsey AJ, Morris MT, Wang S, Willsey HR, Sun N, Teerikorpi N, Baum TB, Cagney G, Bender KJ, Desai TA, Srivastava D, Davis GW, Doudna J, Chang E, Sohal V, Lowenstein DH, Li H, Agard D, Keiser MJ, …
• 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
• Calcium binding to a remote site can replace magnesium as cofactor for mitochondrial Hsp90 (TRAP1) ATPase activity.
  The Journal of biological chemistry 2018 Elnatan D, Agard DA
• Structural basis of mitochondrial receptor binding and constriction by DRP1.
  Nature 2018 Kalia R, Wang RY, Yusuf A, Thomas PV, Agard DA, Shaw JM, Frost A
• Cryo-tomography tilt-series alignment with consideration of the beam-induced sample motion.
  Journal of structural biology 2018 Fernandez JJ, Li S, Bharat TAM, Agard DA
• The Structural Asymmetry of Mitochondrial Hsp90 (Trap1) Determines Fine Tuning of Functional Dynamics.
  Journal of chemical theory and computation 2018 Moroni E, Agard DA, Colombo G
• The centrosomin CM2 domain is a multi-functional binding domain with distinct cell cycle roles.
  PloS one 2018 Citron YR, Fagerstrom CJ, Keszthelyi B, Huang B, Rusan NM, Kelly MJS, Agard DA
• Protein Expression and Purification of the Hsp90-Cdc37-Cdk4 Kinase Complex from Saccharomyces cerevisiae.
  Bio-protocol 2017 Verba KA, Agard DA
• How Hsp90 and Cdc37 Lubricate Kinase Molecular Switches.
  Trends in biochemical sciences 2017 Verba KA, Agard DA
• Symmetry broken and rebroken during the ATP hydrolysis cycle of the mitochondrial Hsp90 TRAP1.
  eLife 2017 Elnatan D, Betegon M, Liu Y, Ramelot T, Kennedy MA, Agard DA
• NMR characterization of HtpG, the E. coli Hsp90, using sparse labeling with 13C-methyl alanine.
  Journal of biomolecular NMR 2017 Pederson K, Chalmers GR, Gao Q, Elnatan D, Ramelot TA, Ma LC, Montelione GT, Kennedy MA, Agard DA, Prestegard JH
• Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin.
  Nature 2017 Larson AG, Elnatan D, Keenen MM, Trnka MJ, Johnston JB, Burlingame AL, Agard DA, Redding S, Narlikar GJ
• Grafting both acute wound site and adjacent donor site with the same graft: an easy and safe procedure to improve healing and minimize pain in elderly and bedridden patients.
  Annals of burns and fire disasters 2017 Keilani C, Agard D, Duhoux A, Lakhel A, Giraud O, Brachet M, Duhamel P, Bey E
• Design of Allosteric Stimulators of the Hsp90 ATPase as New Anticancer Leads.
  Chemistry (Weinheim an der Bergstrasse, Germany) 2017 D'Annessa I, Sattin S, Tao J, Pennati M, Sànchez-Martìn C, Moroni E, Rasola A, Zaffaroni N, Agard DA, Bernardi A, Colombo G
• MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy.
  Nature methods 2017 Zheng SQ, Palovcak E, Armache JP, Verba KA, Cheng Y, Agard DA
• Assembly of a nucleus-like structure during viral replication in bacteria.
  Science (New York, N.Y.) 2017 Chaikeeratisak V, Nguyen K, Khanna K, Brilot AF, Erb ML, Coker JK, Vavilina A, Newton GL, Buschauer R, Pogliano K, Villa E, Agard DA, Pogliano J
• Internal Structure and Preferential Protein Binding of Colloidal Aggregates.
  ACS chemical biology 2016 Duan D, Torosyan H, Elnatan D, McLaughlin CK, Logie J, Shoichet MS, Agard DA, Shoichet BK
• Atomic structure of Hsp90-Cdc37-Cdk4 reveals that Hsp90 traps and stabilizes an unfolded kinase.
  Science (New York, N.Y.) 2016 Verba KA, Wang RY, Arakawa A, Liu Y, Shirouzu M, Yokoyama S, Agard DA
• Higher-order oligomerization of Spc110p drives γ-tubulin ring complex assembly.
  Molecular biology of the cell 2016 Lyon AS, Morin G, Moritz M, Yabut KC, Vojnar T, Zelter A, Muller E, Davis TN, Agard DA
• A Fortunate Story of an Unusual AK-47 Bullet Trajectory: Always Keep a Smartphone in Your Pocket.
  Prehospital and disaster medicine 2016 Thabouillot O, Perrier P, Roche NC, Agard D, Barbier O, Martin G, Viant E, Leclere JB
• The Seckel syndrome and centrosomal protein Ninein localizes asymmetrically to stem cell centrosomes but is not required for normal development, behavior, or DNA damage response in Drosophila.
  Molecular biology of the cell 2016 Zheng Y, Mennella V, Marks S, Wildonger J, Elnagdi E, Agard D, Megraw TL
• Molecular Dynamics Simulations Reveal the Mechanisms of Allosteric Activation of Hsp90 by Designed Ligands.
  Scientific reports 2016 Vettoretti G, Moroni E, Sattin S, Tao J, Agard DA, Bernardi A, Colombo G
• Structure of γ-tubulin small complex based on a cryo-EM map, chemical cross-links, and a remotely related structure.
  Journal of structural biology 2016 Greenberg CH, Kollman J, Zelter A, Johnson R, MacCoss MJ, Davis TN, Agard DA, Sali A
• Clinical validation of Anyplex™ II HPV HR Detection according to the guidelines for HPV test requirements for cervical cancer screening.
  Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2016 Hesselink AT, Sahli R, Berkhof J, Snijders PJ, van der Salm ML, Agard D, Bleeker MC, Heideman DA
• Activity-Independent Discovery of Secondary Metabolites Using Chemical Elicitation and Cheminformatic Inference.
  ACS chemical biology 2015 Pimentel-Elardo SM, Sørensen D, Ho L, Ziko M, Bueler SA, Lu S, Tao J, Moser A, Lee R, Agard D, Fairn G, Rubinstein JL, Shoichet BK, Nodwell JR
• Asynchronous data acquisition and on-the-fly analysis of dose fractionated cryoEM images by UCSFImage.
  Journal of structural biology 2015 Li X, Zheng S, Agard DA, Cheng Y
• Evaluation of super-resolution performance of the K2 electron-counting camera using 2D crystals of aquaporin-0.
  Journal of structural biology 2015 Chiu PL, Li X, Li Z, Beckett B, Brilot AF, Grigorieff N, Agard DA, Cheng Y, Walz T
• Activation of Hsp90 Enzymatic Activity and Conformational Dynamics through Rationally Designed Allosteric Ligands.
  Chemistry (Weinheim an der Bergstrasse, Germany) 2015 Sattin S, Tao J, Vettoretti G, Moroni E, Pennati M, Lopergolo A, Morelli L, Bugatti A, Zuehlke A, Moses M, Prince T, Kijima T, Beebe K, Rusnati M, Neckers L, Zaffaroni N, Agard DA, Bernardi A, Colombo…
• The cancer cell map initiative: defining the hallmark networks of cancer.
  Molecular cell 2015 Krogan NJ, Lippman S, Agard DA, Ashworth A, Ideker T
• Interaction of CK1δ with γTuSC ensures proper microtubule assembly and spindle positioning.
  Molecular biology of the cell 2015 Peng Y, Moritz M, Han X, Giddings TH, Lyon A, Kollman J, Winey M, Yates J, Agard DA, Drubin DG, Barnes G
• Hsp70 forms antiparallel dimers stabilized by post-translational modifications to position clients for transfer to Hsp90.
  Cell reports 2015 Morgner N, Schmidt C, Beilsten-Edmands V, Ebong IO, Patel NA, Clerico EM, Kirschke E, Daturpalli S, Jackson SE, Agard D, Robinson CV
• MRC2014: Extensions to the MRC format header for electron cryo-microscopy and tomography.
  Journal of structural biology 2015 Cheng A, Henderson R, Mastronarde D, Ludtke SJ, Schoenmakers RH, Short J, Marabini R, Dallakyan S, Agard D, Winn M
• Ring closure activates yeast γTuRC for species-specific microtubule nucleation.
  Nature structural & molecular biology 2015 Kollman JM, Greenberg CH, Li S, Moritz M, Zelter A, Fong KK, Fernandez JJ, Sali A, Kilmartin J, Davis TN, Agard DA
• A novel N-terminal extension in mitochondrial TRAP1 serves as a thermal regulator of chaperone activity.
  eLife 2014 Partridge JR, Lavery LA, Elnatan D, Naber N, Cooke R, Agard DA
• A bacteriophage tubulin harnesses dynamic instability to center DNA in infected cells.
  eLife 2014 Erb ML, Kraemer JA, Coker JK, Chaikeeratisak V, Nonejuie P, Agard DA, Pogliano J
• Glucocorticoid receptor function regulated by coordinated action of the Hsp90 and Hsp70 chaperone cycles.
  Cell 2014 Kirschke E, Goswami D, Southworth D, Griffin PR, Agard DA
• Elucidating the mechanism of substrate recognition by the bacterial Hsp90 molecular chaperone.
  Journal of molecular biology 2014 Street TO, Zeng X, Pellarin R, Bonomi M, Sali A, Kelly MJ, Chu F, Agard DA
• Sparse labeling of proteins: structural characterization from long range constraints.
  Journal of magnetic resonance (San Diego, Calif. : 1997) 2014 Prestegard JH, Agard DA, Moremen KW, Lavery LA, Morris LC, Pederson K
• Microarray-based screening of heat shock protein inhibitors.
  Journal of biotechnology 2014 Schax E, Walter JG, Märzhäuser H, Stahl F, Scheper T, Agard DA, Eichner S, Kirschning A, Zeilinger C
• The structure and assembly mechanism of a novel three-stranded tubulin filament that centers phage DNA.
  Structure (London, England : 1993) 2014 Zehr EA, Kraemer JA, Erb ML, Coker JK, Montabana EA, Pogliano J, Agard DA
• Bacterial tubulin TubZ-Bt transitions between a two-stranded intermediate and a four-stranded filament upon GTP hydrolysis.
  Proceedings of the National Academy of Sciences of the United States of America 2014 Montabana EA, Agard DA
• The free energy profile of tubulin straight-bent conformational changes, with implications for microtubule assembly and drug discovery.
  PLoS computational biology 2014 Peng LX, Hsu MT, Bonomi M, Agard DA, Jacobson MP
• Structural asymmetry in the closed state of mitochondrial Hsp90 (TRAP1) supports a two-step ATP hydrolysis mechanism.
  Molecular cell 2014 Lavery LA, Partridge JR, Ramelot TA, Elnatan D, Kennedy MA, Agard DA
• Amorphous no more: subdiffraction view of the pericentriolar material architecture.
  Trends in cell biology 2013 Mennella V, Agard DA, Huang B, Pelletier L
• A new approach for the laboratory culture of the fathead minnow, Pimephales promelas.
  Environmental toxicology and chemistry 2013 Gordon DA, Smith ME, Wratschko M, Agard D, Holden L, Wilcox S, Lazorchak JM
• Cell-cycle regulation of formin-mediated actin cable assembly.
  Proceedings of the National Academy of Sciences of the United States of America 2013 Miao Y, Wong CC, Mennella V, Michelot A, Agard DA, Holt LJ, Yates JR, Drubin DG
• High-resolution restoration of 3D structures from widefield images with extreme low signal-to-noise-ratio.
  Proceedings of the National Academy of Sciences of the United States of America 2013 Arigovindan M, Fung JC, Elnatan D, Mennella V, Chan YH, Pollard M, Branlund E, Sedat JW, Agard DA
• The Aptima HPV assay fulfills the cross-sectional clinical and reproducibility criteria of international guidelines for human papillomavirus test requirements for cervical screening.
  Journal of clinical microbiology 2013 Heideman DA, Hesselink AT, van Kemenade FJ, Iftner T, Berkhof J, Topal F, Agard D, Meijer CJ, Snijders PJ
• Influence of electron dose rate on electron counting images recorded with the K2 camera.
  Journal of structural biology 2013 Li X, Zheng SQ, Egami K, Agard DA, Cheng Y
• Electron counting and beam-induced motion correction enable near-atomic-resolution single-particle cryo-EM.
  Nature methods 2013 Li X, Mooney P, Zheng S, Booth CR, Braunfeld MB, Gubbens S, Agard DA, Cheng Y
• Uncovering a region of heat shock protein 90 important for client binding in E. coli and chaperone function in yeast.
  Molecular cell 2012 Genest O, Reidy M, Street TO, Hoskins JR, Camberg JL, Agard DA, Masison DC, Wickner S
• Fast multicolor 3D imaging using aberration-corrected multifocus microscopy.
  Nature methods 2012 Abrahamsson S, Chen J, Hajj B, Stallinga S, Katsov AY, Wisniewski J, Mizuguchi G, Soule P, Mueller F, Dugast Darzacq C, Darzacq X, Wu C, Bargmann CI, Agard DA, Dahan M, Gustafsson MG
• The bacterial actin MamK: in vitro assembly behavior and filament architecture.
  The Journal of biological chemistry 2012 Ozyamak E, Kollman J, Agard DA, Komeili A
• A method for integrative structure determination of protein-protein complexes.
  Bioinformatics (Oxford, England) 2012 Schneidman-Duhovny D, Rossi A, Avila-Sakar A, Kim SJ, Velázquez-Muriel J, Strop P, Liang H, Krukenberg KA, Liao M, Kim HM, Sobhanifar S, Dötsch V, Rajpal A, Pons J, Agard DA, Cheng Y, Sali A
• Subdiffraction-resolution fluorescence microscopy reveals a domain of the centrosome critical for pericentriolar material organization.
  Nature cell biology 2012 Mennella V, Keszthelyi B, McDonald KL, Chhun B, Kan F, Rogers GC, Huang B, Agard DA
• The conserved arginine 380 of Hsp90 is not a catalytic residue, but stabilizes the closed conformation required for ATP hydrolysis.
  Protein science : a publication of the Protein Society 2012 Cunningham CN, Southworth DR, Krukenberg KA, Agard DA
• A phage tubulin assembles dynamic filaments by an atypical mechanism to center viral DNA within the host cell.
  Cell 2012 Kraemer JA, Erb ML, Waddling CA, Montabana EA, Zehr EA, Wang H, Nguyen K, Pham DS, Agard DA, Pogliano J
• Functional modulation of a protein folding landscape via side-chain distortion.
  Proceedings of the National Academy of Sciences of the United States of America 2012 Kelch BA, Salimi NL, Agard DA
• Interferometer-based structured-illumination microscopy utilizing complementary phase relationship through constructive and destructive image detection by two cameras.
  Journal of microscopy 2012 Shao L, Winoto L, Agard DA, Gustafsson MG, Sedat JW
• Effect of depth dependent spherical aberrations in 3D structured illumination microscopy.
  Optics express 2012 Arigovindan M, Sedat JW, Agard DA
• Three-dimensional structure of basal body triplet revealed by electron cryo-tomography.
  The EMBO journal 2011 Li S, Fernandez JJ, Marshall WF, Agard DA
• Cross-monomer substrate contacts reposition the Hsp90 N-terminal domain and prime the chaperone activity.
  Journal of molecular biology 2011 Street TO, Lavery LA, Verba KA, Lee CT, Mayer MP, Agard DA
• Microtubule nucleation by γ-tubulin complexes.
  Nature reviews. Molecular cell biology 2011 Kollman JM, Merdes A, Mourey L, Agard DA
• A small molecule that preferentially binds the closed conformation of Hsp90.
  Bioorganic & medicinal chemistry letters 2011 Alexander LD, Partridge JR, Agard DA, McAlpine SR
• Crystal structure of γ-tubulin complex protein GCP4 provides insight into microtubule nucleation.
  Nature structural & molecular biology 2011 Guillet V, Knibiehler M, Gregory-Pauron L, Remy MH, Chemin C, Raynaud-Messina B, Bon C, Kollman JM, Agard DA, Merdes A, Mourey L
• Client-loading conformation of the Hsp90 molecular chaperone revealed in the cryo-EM structure of the human Hsp90:Hop complex.
  Molecular cell 2011 Southworth DR, Agard DA
• Sas-4 provides a scaffold for cytoplasmic complexes and tethers them in a centrosome.
  Nature communications 2011 Gopalakrishnan J, Mennella V, Blachon S, Zhai B, Smith AH, Megraw TL, Nicastro D, Gygi SP, Agard DA, Avidor-Reiss T
• Substrate binding drives large-scale conformational changes in the Hsp90 molecular chaperone.
  Molecular cell 2011 Street TO, Lavery LA, Agard DA
• A distributed multi-GPU system for high speed electron microscopic tomographic reconstruction.
  Ultramicroscopy 2011 Zheng SQ, Branlund E, Kesthelyi B, Braunfeld MB, Cheng Y, Sedat JW, Agard DA
• Conformational dynamics of the molecular chaperone Hsp90.
  Quarterly reviews of biophysics 2011 Krukenberg KA, Street TO, Lavery LA, Agard DA
• Architecture and assembly of a divergent member of the ParM family of bacterial actin-like proteins.
  The Journal of biological chemistry 2011 Rivera CR, Kollman JM, Polka JK, Agard DA, Mullins RD
• An improved strategy for generating forces in steered molecular dynamics: the mechanical unfolding of titin, e2lip3 and ubiquitin.
  PloS one 2010 Ho BK, Agard DA
• Condensed mitotic chromosome structure at nanometer resolution using PALM and EGFP- histones.
  PloS one 2010 Matsuda A, Shao L, Boulanger J, Kervrann C, Carlton PM, Kner P, Agard D, Sedat JW
• Fast live simultaneous multiwavelength four-dimensional optical microscopy.
  Proceedings of the National Academy of Sciences of the United States of America 2010 Carlton PM, Boulanger J, Kervrann C, Sibarita JB, Salamero J, Gordon-Messer S, Bressan D, Haber JE, Haase S, Shao L, Winoto L, Matsuda A, Kner P, Uzawa S, Gustafsson M, Kam Z, Agard DA, Sedat JW
• Microtubule nucleating gamma-TuSC assembles structures with 13-fold microtubule-like symmetry.
  Nature 2010 Kollman JM, Polka JK, Zelter A, Davis TN, Agard DA
• High-performance iterative electron tomography reconstruction with long-object compensation using graphics processing units (GPUs).
  Journal of structural biology 2010 Xu W, Xu F, Jones M, Keszthelyi B, Sedat J, Agard D, Mueller K
• A Parallel Product-Convolution approach for representing the depth varying Point Spread Functions in 3D widefield microscopy based on principal component analysis.
  Optics express 2010 Arigovindan M, Shaevitz J, McGowan J, Sedat JW, Agard DA
• Conserved tertiary couplings stabilize elements in the PDZ fold, leading to characteristic patterns of domain conformational flexibility.
  Protein science : a publication of the Protein Society 2010 Ho BK, Agard DA
• Unfolding simulations reveal the mechanism of extreme unfolding cooperativity in the kinetically stable alpha-lytic protease.
  PLoS computational biology 2010 Salimi NL, Ho B, Agard DA
• Closed loop adaptive optics for microscopy without a wavefront sensor.
  Proceedings of SPIE--the International Society for Optical Engineering 2010 Kner P, Winoto L, Agard DA, Sedat JW
• High-resolution wide-field microscopy with adaptive optics for spherical aberration correction and motionless focusing.
  Journal of microscopy 2010 Kner P, Sedat JW, Agard DA, Kam Z
• Self-assembling SAS-6 multimer is a core centriole building block.
  The Journal of biological chemistry 2010 Gopalakrishnan J, Guichard P, Smith AH, Schwarz H, Agard DA, Marco S, Avidor-Reiss T
• Automated data collection for electron microscopic tomography.
  Methods in enzymology 2010 Zheng SQ, Sedat JW, Agard DA
• Mechanistic studies of Sansalvamide A-amide: an allosteric modulator of Hsp90.
  ACS medicinal chemistry letters 2010 Vasko RC, Rodriguez RA, Cunningham CN, Ardi VC, Agard DA, McAlpine SR
• Osmolyte-induced conformational changes in the Hsp90 molecular chaperone.
  Protein science : a publication of the Protein Society 2010 Street TO, Krukenberg KA, Rosgen J, Bolen DW, Agard DA
• On the efficiency of iterative ordered subset reconstruction algorithms for acceleration on GPUs.
  Computer methods and programs in biomedicine 2009 Xu F, Xu W, Jones M, Keszthelyi B, Sedat J, Agard D, Mueller K
• Grp94, the endoplasmic reticulum Hsp90, has a similar solution conformation to cytosolic Hsp90 in the absence of nucleotide.
  Protein science : a publication of the Protein Society 2009 Krukenberg KA, Böttcher UM, Southworth DR, Agard DA
• Localization and orientation of the gamma-tubulin small complex components using protein tags as labels for single particle EM.
  Journal of structural biology 2009 Choy RM, Kollman JM, Zelter A, Davis TN, Agard DA
• The structure and assembly dynamics of plasmid actin AlfA imply a novel mechanism of DNA segregation.
  Journal of bacteriology 2009 Polka JK, Kollman JM, Agard DA, Mullins RD
• Dual-axis target mapping and automated sequential acquisition of dual-axis EM tomographic data.
  Journal of structural biology 2009 Zheng SQ, Matsuda A, Braunfeld MB, Sedat JW, Agard DA
• pH-dependent conformational changes in bacterial Hsp90 reveal a Grp94-like conformation at pH 6 that is highly active in suppression of citrate synthase aggregation.
  Journal of molecular biology 2009 Krukenberg KA, Southworth DR, Street TO, Agard DA
• Fully automated, sequential tilt-series acquisition with Leginon.
  Journal of structural biology 2009 Suloway C, Shi J, Cheng A, Pulokas J, Carragher B, Potter CS, Zheng SQ, Agard DA, Jensen GJ
• Probing the flexibility of large conformational changes in protein structures through local perturbations.
  PLoS computational biology 2009 Ho BK, Agard DA
• Species-dependent ensembles of conserved conformational states define the Hsp90 chaperone ATPase cycle.
  Molecular cell 2008 Southworth DR, Agard DA
• How general is the nucleation-condensation mechanism?
  Proteins 2008 Nölting B, Agard DA
• Identification of new, well-populated amino-acid sidechain rotamers involving hydroxyl-hydrogen atoms and sulfhydryl-hydrogen atoms.
  BMC structural biology 2008 Ho BK, Agard DA
• Integration of small-angle X-ray scattering data into structural modeling of proteins and their assemblies.
  Journal of molecular biology 2008 Förster F, Webb B, Krukenberg KA, Tsuruta H, Agard DA, Sali A
• Subdiffraction multicolor imaging of the nuclear periphery with 3D structured illumination microscopy.
  Science (New York, N.Y.) 2008 Schermelleh L, Carlton PM, Haase S, Shao L, Winoto L, Kner P, Burke B, Cardoso MC, Agard DA, Gustafsson MG, Leonhardt H, Sedat JW
• Intra- and intermonomer interactions are required to synergistically facilitate ATP hydrolysis in Hsp90.
  The Journal of biological chemistry 2008 Cunningham CN, Krukenberg KA, Agard DA
• Multiple conformations of E. coli Hsp90 in solution: insights into the conformational dynamics of Hsp90.
  Structure (London, England : 1993) 2008 Krukenberg KA, Förster F, Rice LM, Sali A, Agard DA
• Mob4 plays a role in spindle focusing in Drosophila S2 cells.
  Journal of cell science 2008 Trammell MA, Mahoney NM, Agard DA, Vale RD
• The lattice as allosteric effector: structural studies of alphabeta- and gamma-tubulin clarify the role of GTP in microtubule assembly.
  Proceedings of the National Academy of Sciences of the United States of America 2008 Rice LM, Montabana EA, Agard DA
• I5S: wide-field light microscopy with 100-nm-scale resolution in three dimensions.
  Biophysical journal 2008 Shao L, Isaac B, Uzawa S, Agard DA, Sedat JW, Gustafsson MG
• Three-dimensional resolution doubling in wide-field fluorescence microscopy by structured illumination.
  Biophysical journal 2008 Gustafsson MG, Shao L, Carlton PM, Wang CJ, Golubovskaya IN, Cande WZ, Agard DA, Sedat JW
• The structure of the gamma-tubulin small complex: implications of its architecture and flexibility for microtubule nucleation.
  Molecular biology of the cell 2007 Kollman JM, Zelter A, Muller EG, Fox B, Rice LM, Davis TN, Agard DA
• AIDA: an adaptive image deconvolution algorithm with application to multi-frame and three-dimensional data.
  Journal of the Optical Society of America. A, Optics, image science, and vision 2007 Hom EF, Marchis F, Lee TK, Haase S, Agard DA, Sedat JW
• Mesophile versus thermophile: insights into the structural mechanisms of kinetic stability.
  Journal of molecular biology 2007 Kelch BA, Agard DA
• Modelling the application of adaptive optics to wide-field microscope live imaging.
  Journal of microscopy 2007 Kam Z, Kner P, Agard D, Sedat JW
• The three-dimensional structure of in vitro reconstituted Xenopus laevis chromosomes by EM tomography.
  Chromosoma 2007 König P, Braunfeld MB, Sedat JW, Agard DA
• Structural and mechanistic exploration of acid resistance: kinetic stability facilitates evolution of extremophilic behavior.
  Journal of molecular biology 2007 Kelch BA, Eagen KP, Erciyas FP, Humphris EL, Thomason AR, Mitsuiki S, Agard DA
• Automated acquisition of electron microscopic random conical tilt sets.
  Journal of structural biology 2006 Zheng SQ, Kollman JM, Braunfeld MB, Sedat JW, Agard DA
• Structural Analysis of E. coli hsp90 reveals dramatic nucleotide-dependent conformational rearrangements.
  Cell 2006 Shiau AK, Harris SF, Southworth DR, Agard DA
• Tunable instability mechanisms of polymer thin films by molecular self-assembly.
  Langmuir : the ACS journal of surfaces and colloids 2006 Wei B, Lam PG, Braunfeld MB, Agard DA, Genzer J, Spontak RJ
• Electron energy filtering significantly improves amplitude contrast of frozen-hydrated protein at 300kV.
  Journal of structural biology 2006 Yonekura K, Braunfeld MB, Maki-Yonekura S, Agard DA
• Subangstrom crystallography reveals that short ionic hydrogen bonds, and not a His-Asp low-barrier hydrogen bond, stabilize the transition state in serine protease catalysis.
  Journal of the American Chemical Society 2006 Fuhrmann CN, Daugherty MD, Agard DA
• UCSF tomography: an integrated software suite for real-time electron microscopic tomographic data collection, alignment, and reconstruction.
  Journal of structural biology 2006 Zheng SQ, Keszthelyi B, Branlund E, Lyle JM, Braunfeld MB, Sedat JW, Agard DA
• The folding landscape of an alpha-lytic protease variant reveals the role of a conserved beta-hairpin in the development of kinetic stability.
  Proteins 2005 Truhlar SM, Agard DA
• Intramolecular signaling pathways revealed by modeling anisotropic thermal diffusion.
  Journal of molecular biology 2005 Ota N, Agard DA
• A novel 3D wavelet-based filter for visualizing features in noisy biological data.
  Journal of microscopy 2005 Moss WC, Haase S, Lyle JM, Agard DA, Sedat JW
• Insights into microtubule nucleation from the crystal structure of human gamma-tubulin.
  Nature 2005 Aldaz H, Rice LM, Stearns T, Agard DA
• Comprehensive analysis of protein folding activation thermodynamics reveals a universal behavior violated by kinetically stable proteases.
  Journal of molecular biology 2005 Jaswal SS, Truhlar SM, Dill KA, Agard DA
• Use of surface affinity enrichment and cryo-embedding to prepare in vitro reconstituted mitotic chromosomes for EM tomography.
  Ultramicroscopy 2005 König P, Braunfeld M, Agard DA
• Suite of three protein crystallography beamlines with single superconducting bend magnet as the source.
  Journal of synchrotron radiation 2004 MacDowell AA, Celestre RS, Howells M, McKinney W, Krupnick J, Cambie D, Domning EE, Duarte RM, Kelez N, Plate DW, Cork CW, Earnest TN, Dickert J, Meigs G, Ralston C, Holton JM, Alber T, Berger JM, …
• Phase-retrieved pupil functions in wide-field fluorescence microscopy.
  Journal of microscopy 2004 Hanser BM, Gustafsson MG, Agard DA, Sedat JW
• Spindle pole body duplication in fission yeast occurs at the G1/S boundary but maturation is blocked until exit from S by an event downstream of cdc10+.
  Molecular biology of the cell 2004 Uzawa S, Li F, Jin Y, McDonald KL, Braunfeld MB, Agard DA, Cande WZ
• An improved strategy for automated electron microscopic tomography.
  Journal of structural biology 2004 Zheng QS, Braunfeld MB, Sedat JW, Agard DA
• The crystal structure of the carboxy-terminal dimerization domain of htpG, the Escherichia coli Hsp90, reveals a potential substrate binding site.
  Structure (London, England : 1993) 2004 Harris SF, Shiau AK, Agard DA
• The 0.83 A resolution crystal structure of alpha-lytic protease reveals the detailed structure of the active site and identifies a source of conformational strain.
  Journal of molecular biology 2004 Fuhrmann CN, Kelch BA, Ota N, Agard DA
• Disabling the folding catalyst is the last critical step in alpha-lytic protease folding.
  Protein science : a publication of the Protein Society 2004 Cunningham EL, Agard DA
• The folding landscape of Streptomyces griseus protease B reveals the energetic costs and benefits associated with evolving kinetic stability.
  Protein science : a publication of the Protein Society 2004 Truhlar SM, Cunningham EL, Agard DA
• Interdependent folding of the N- and C-terminal domains defines the cooperative folding of alpha-lytic protease.
  Biochemistry 2003 Cunningham EL, Agard DA
• Phase retrieval for high-numerical-aperture optical systems.
  Optics letters 2003 Hanser BM, Gustafsson MG, Agard DA, Sedat JW
• Assessment of the role of computations in structural biology.
  Advances in protein chemistry 2003 Kuntz ID, Agard DA
• The pro region N-terminal domain provides specific interactions required for catalysis of alpha-lytic protease folding.
  Biochemistry 2002 Cunningham EL, Mau T, Truhlar SM, Agard DA
• Structural studies of the scrapie prion protein by electron crystallography.
  Proceedings of the National Academy of Sciences of the United States of America 2002 Wille H, Michelitsch MD, Guenebaut V, Supattapone S, Serban A, Cohen FE, Agard DA, Prusiner SB
• Energetic landscape of alpha-lytic protease optimizes longevity through kinetic stability.
  Nature 2002 Jaswal SS, Sohl JL, Davis JH, Agard DA
• The solution structure of the viral binding domain of Tva, the cellular receptor for subgroup A avian leukosis and sarcoma virus.
  FEBS letters 2001 Tonelli M, Peters RJ, James TL, Agard DA
• GCP5 and GCP6: two new members of the human gamma-tubulin complex.
  Molecular biology of the cell 2001 Murphy SM, Preble AM, Patel UK, O'Connell KL, Dias DP, Moritz M, Agard D, Stults JT, Stearns T
• Enzyme specificity under dynamic control II: Principal component analysis of alpha-lytic protease using global and local solvent boundary conditions.
  Protein science : a publication of the Protein Society 2001 Ota N, Agard DA
• Chromosome elasticity and mitotic polar ejection force measured in living Drosophila embryos by four-dimensional microscopy-based motion analysis.
  Current biology : CB 2001 Marshall WF, Marko JF, Agard DA, Sedat JW
• Gamma-tubulin complexes and microtubule nucleation.
  Current opinion in structural biology 2001 Moritz M, Agard DA
• Computational adaptive optics for live three-dimensional biological imaging.
  Proceedings of the National Academy of Sciences of the United States of America 2001 Kam Z, Hanser B, Gustafsson MG, Agard DA, Sedat JW
• Reconstitution of centrosome microtubule nucleation in Drosophila.
  Methods in cell biology 2001 Moritz M, Braunfeld MB, Alberts BM, Agard DA
• Estrogen receptor pathways to AP-1.
  The Journal of steroid biochemistry and molecular biology 2000 Kushner PJ, Agard DA, Greene GL, Scanlan TS, Shiau AK, Uht RM, Webb P
• Structure of the gamma-tubulin ring complex: a template for microtubule nucleation.
  Nature cell biology 2000 Moritz M, Braunfeld MB, Guénebaut V, Heuser J, Agard DA
• Two energetically disparate folding pathways of alpha-lytic protease share a single transition state.
  Nature structural biology 2000 Derman AI, Agard DA
• Evidence for the coincident initiation of homolog pairing and synapsis during the telomere-clustering (bouquet) stage of meiotic prophase.
  Journal of cell science 2000 Bass HW, Riera-Lizarazu O, Ananiev EV, Bordoli SJ, Rines HW, Phillips RL, Sedat JW, Agard DA, Cande WZ
• Direct measurement of interfacial curvature distributions in a bicontinuous block copolymer morphology.
  Physical review letters 2000 Jinnai H, Nishikawa Y, Spontak RJ, Smith SD, Agard DA, Hashimoto T
• Oestrogen receptor function at classical and alternative response elements.
  Novartis Foundation symposium 2000 Kushner PJ, Agard D, Feng WJ, Lopez G, Schiau A, Uht R, Webb P, Greene G
• Kinetic stability as a mechanism for protease longevity.
  Proceedings of the National Academy of Sciences of the United States of America 1999 Cunningham EL, Jaswal SS, Sohl JL, Agard DA
• I5M: 3D widefield light microscopy with better than 100 nm axial resolution.
  Journal of microscopy 1999 Gustafsson MG, Agard DA, Sedat JW
• alpha-lytic protease precursor: characterization of a structured folding intermediate.
  Biochemistry 1999 Anderson DE, Peters RJ, Wilk B, Agard DA
• Enzyme specificity under dynamic control: a normal mode analysis of alpha-lytic protease.
  Journal of molecular biology 1999 Miller DW, Agard DA
• The structural basis of estrogen receptor/coactivator recognition and the antagonism of this interaction by tamoxifen.
  Cell 1998 Shiau AK, Barstad D, Loria PM, Cheng L, Kushner PJ, Agard DA, Greene GL
• Structure of alpha-lytic protease complexed with its pro region.
  Nature structural biology 1998 Sauter NK, Mau T, Rader SD, Agard DA
• Unfolded conformations of alpha-lytic protease are more stable than its native state.
  Nature 1998 Sohl JL, Jaswal SS, Agard DA
• Pro region C-terminus:protease active site interactions are critical in catalyzing the folding of alpha-lytic protease.
  Biochemistry 1998 Peters RJ, Shiau AK, Sohl JL, Anderson DE, Tang G, Silen JL, Agard DA
• Relationship between enzyme specificity and the backbone dynamics of free and inhibited alpha-lytic protease.
  Biochemistry 1998 Davis JH, Agard DA
• Homologous chromosome pairing in Drosophila melanogaster proceeds through multiple independent initiations.
  The Journal of cell biology 1998 Fung JC, Marshall WF, Dernburg A, Agard DA, Sedat JW
• Activation of a retroviral membrane fusion protein: soluble receptor-induced liposome binding of the ALSV envelope glycoprotein.
  The Journal of cell biology 1997 Hernandez LD, Peters RJ, Delos SE, Young JA, Agard DA, White JM
• Interphase chromosomes undergo constrained diffusional motion in living cells.
  Current biology : CB 1997 Marshall WF, Straight A, Marko JF, Swedlow J, Dernburg A, Belmont A, Murray AW, Agard DA, Sedat JW
• Practical image restoration of thick biological specimens using multiple focus levels in transmission electron microscopy.
  Journal of structural biology 1997 Han KF, Sedat JW, Agard DA
• Alterations in chemical shifts and exchange broadening upon peptide boronic acid inhibitor binding to alpha-lytic protease.
  Journal of biomolecular NMR 1997 Davis JH, Agard DA, Handel TM, Basus VJ
• Conformational substates in enzyme mechanism: the 120 K structure of alpha-lytic protease at 1.5 A resolution.
  Protein science : a publication of the Protein Society 1997 Rader SD, Agard DA
• Telomeres cluster de novo before the initiation of synapsis: a three-dimensional spatial analysis of telomere positions before and during meiotic prophase.
  The Journal of cell biology 1997 Bass HW, Marshall WF, Sedat JW, Agard DA, Cande WZ
• Inhibition of alpha-lytic protease by pro region C-terminal steric occlusion of the active site.
  Biochemistry 1997 Sohl JL, Shiau AK, Rader SD, Wilk BJ, Agard DA
• Optimal strategies for imaging thick biological specimens: exit wavefront reconstruction and energy-filtered imaging.
  Journal of microscopy 1996 Han KF, Gubbens AJ, Sedat JW, Agard DA
• Perturbation of nuclear architecture by long-distance chromosome interactions.
  Cell 1996 Dernburg AF, Broman KW, Fung JC, Marshall WF, Philips J, Agard DA, Sedat JW
• Specific interactions of chromatin with the nuclear envelope: positional determination within the nucleus in Drosophila melanogaster.
  Molecular biology of the cell 1996 Marshall WF, Dernburg AF, Harmon B, Agard DA, Sedat JW
• Dispersion, aberration and deconvolution in multi-wavelength fluorescence images.
  Journal of microscopy 1996 Scalettar BA, Swedlow JR, Sedat JW, Agard DA
• Time-resolved, in vivo studies of mitotic spindle formation and nuclear lamina breakdown in Drosophila early embryos.
  Journal of cell science 1996 Paddy MR, Saumweber H, Agard DA, Sedat JW
• IVE (Image Visualization Environment): a software platform for all three-dimensional microscopy applications.
  Journal of structural biology 1996 Chen H, Hughes DD, Chan TA, Sedat JW, Agard DA
• Toward fully automated high-resolution electron tomography.
  Journal of structural biology 1996 Fung JC, Liu W, de Ruijter WJ, Chen H, Abbey CK, Sedat JW, Agard DA
• Kinetic and structural characterization of mutations of glycine 216 in alpha-lytic protease: a new target for engineering substrate specificity.
  Journal of molecular biology 1995 Mace JE, Agard DA
• Microtubule nucleation by gamma-tubulin-containing rings in the centrosome.
  Nature 1995 Moritz M, Braunfeld MB, Sedat JW, Alberts B, Agard DA
• A three-dimensional structural dissection of Drosophila polytene chromosomes.
  The Journal of cell biology 1995 Urata Y, Parmelee SJ, Agard DA, Sedat JW
• Three-dimensional structural characterization of centrosomes from early Drosophila embryos.
  The Journal of cell biology 1995 Moritz M, Braunfeld MB, Fung JC, Sedat JW, Alberts BM, Agard DA
• Functional linkage between the active site of alpha-lytic protease and distant regions of structure: scanning alanine mutagenesis of a surface loop affects activity and substrate specificity.
  Journal of molecular biology 1995 Mace JE, Wilk BJ, Agard DA
• Mechanism of image formation for thick biological specimens: exit wavefront reconstruction and electron energy-loss spectroscopic imaging.
  Journal of microscopy 1995 Han KF, Sedat JW, Agard DA
• Influenza hemagglutinin: kinetic control of protein function.
  Structure (London, England : 1993) 1994 Baker D, Agard DA
• Human apolipoprotein E. Role of arginine 61 in mediating the lipoprotein preferences of the E3 and E4 isoforms.
  The Journal of biological chemistry 1994 Dong LM, Wilson C, Wardell MR, Simmons T, Mahley RW, Weisgraber KH, Agard DA
• Salt bridge relay triggers defective LDL receptor binding by a mutant apolipoprotein.
  Structure (London, England : 1993) 1994 Wilson C, Mau T, Weisgraber KH, Wardell MR, Mahley RW, Agard DA
• Kinetics versus thermodynamics in protein folding.
  Biochemistry 1994 Baker D, Agard DA
• Cryo automated electron tomography: towards high-resolution reconstructions of plastic-embedded structures.
  Journal of microscopy 1994 Braunfeld MB, Koster AJ, Sedat JW, Agard DA
• The three-dimensional architecture of chromatin in situ: electron tomography reveals fibers composed of a continuously variable zig-zag nucleosomal ribbon.
  The Journal of cell biology 1994 Horowitz RA, Agard DA, Sedat JW, Woodcock CL
• Meiotic chromosome pairing in maize is associated with a novel chromatin organization.
  Cell 1994 Dawe RK, Sedat JW, Agard DA, Cande WZ
• The role of pro regions in protein folding.
  Current opinion in cell biology 1993 Baker D, Shiau AK, Agard DA
• PRISM: application to the solution of two protein structures.
  Acta crystallographica. Section D, Biological crystallography 1993 Bystroff C, Baker D, Fletterick RJ, Agard DA
• PRISM: topologically constrained phased refinement for macromolecular crystallography.
  Acta crystallographica. Section D, Biological crystallography 1993 Baker D, Bystroff C, Fletterick RJ, Agard DA
• To fold or not to fold....
  Science (New York, N.Y.) 1993 Agard DA
• Chromosome structure inside the nucleus.
  Current opinion in cell biology 1993 Swedlow JR, Agard DA, Sedat JW
• Multiple chromosomal populations of topoisomerase II detected in vivo by time-lapse, three-dimensional wide-field microscopy.
  Cell 1993 Swedlow JR, Sedat JW, Agard DA
• Modeling side-chain conformation for homologous proteins using an energy-based rotamer search.
  Journal of molecular biology 1993 Wilson C, Gregoret LM, Agard DA
• The onset of homologous chromosome pairing during Drosophila melanogaster embryogenesis.
  The Journal of cell biology 1993 Hiraoka Y, Dernburg AF, Parmelee SJ, Rykowski MC, Agard DA, Sedat JW
• Uniqueness and the ab initio phase problem in macromolecular crystallography.
  Acta crystallographica. Section D, Biological crystallography 1993 Baker D, Krukowski AE, Agard DA
• Automated microscopy for electron tomography.
  Ultramicroscopy 1992 Koster AJ, Chen H, Sedat JW, Agard DA
• An extended view of nuclear lamin structure, function, and dynamics.
  Seminars in cell biology 1992 Paddy MR, Agard DA, Sedat JW
• Correct folding of alpha-lytic protease is required for its extracellular secretion from Escherichia coli.
  The Journal of cell biology 1992 Fujishige A, Smith KR, Silen JL, Agard DA
• Protease pro region required for folding is a potent inhibitor of the mature enzyme.
  Proteins 1992 Baker D, Silen JL, Agard DA
• A protein-folding reaction under kinetic control.
  Nature 1992 Baker D, Sohl JL, Agard DA
• Structural basis for broad specificity in alpha-lytic protease mutants.
  Biochemistry 1991 Bone R, Fujishige A, Kettner CA, Agard DA
• Computational method for the design of enzymes with altered substrate specificity.
  Journal of molecular biology 1991 Wilson C, Mace JE, Agard DA
• Three-dimensional structure of the LDL receptor-binding domain of human apolipoprotein E.
  Science (New York, N.Y.) 1991 Wilson C, Wardell MR, Weisgraber KH, Mahley RW, Agard DA
• Drosophila gastrulation: analysis of cell shape changes in living embryos by three-dimensional fluorescence microscopy.
  Development (Cambridge, England) 1991 Kam Z, Minden JS, Agard DA, Sedat JW, Leptin M
• Three-dimensional multiple-wavelength fluorescence microscopy for the structural analysis of biological phenomena.
  Seminars in cell biology 1991 Hiraoka Y, Swedlow JR, Paddy MR, Agard DA, Sedat JW
• Crystal structures of alpha-lytic protease complexes with irreversibly bound phosphonate esters.
  Biochemistry 1991 Bone R, Sampson NS, Bartlett PA, Agard DA
• Free energy calculations on binding and catalysis by alpha-lytic protease: the role of substrate size in the P1 pocket.
  Proteins 1991 Caldwell JW, Agard DA, Kollman PA
• Mutational remodeling of enzyme specificity.
  Methods in enzymology 1991 Bone R, Agard DA
• Temporal and spatial coordination of chromosome movement, spindle formation, and nuclear envelope breakdown during prometaphase in Drosophila melanogaster embryos.
  The Journal of cell biology 1990 Hiraoka Y, Agard DA, Sedat JW
• Interphase nuclear envelope lamins form a discontinuous network that interacts with only a fraction of the chromatin in the nuclear periphery.
  Cell 1990 Paddy MR, Belmont AS, Saumweber H, Agard DA, Sedat JW
• Determination of three-dimensional imaging properties of a light microscope system. Partial confocal behavior in epifluorescence microscopy.
  Biophysical journal 1990 Hiraoka Y, Sedat JW, Agard DA
• Focal points for chromosome condensation and decondensation revealed by three-dimensional in vivo time-lapse microscopy.
  Nature 1989 Hiraoka Y, Minden JS, Swedlow JR, Sedat JW, Agard DA
• The alpha-lytic protease pro-region does not require a physical linkage to activate the protease domain in vivo.
  Nature 1989 Silen JL, Agard DA
• Structural analysis of specificity: alpha-lytic protease complexes with analogues of reaction intermediates.
  Biochemistry 1989 Bone R, Frank D, Kettner CA, Agard DA
• Direct cell lineage analysis in Drosophila melanogaster by time-lapse, three-dimensional optical microscopy of living embryos.
  The Journal of cell biology 1989 Minden JS, Agard DA, Sedat JW, Alberts BM
• Large-scale chromatin structural domains within mitotic and interphase chromosomes in vivo and in vitro.
  Chromosoma 1989 Belmont AS, Braunfeld MB, Sedat JW, Agard DA
• Structural plasticity broadens the specificity of an engineered protease.
  Nature 1989 Bone R, Silen JL, Agard DA
• Analysis of prepro-alpha-lytic protease expression in Escherichia coli reveals that the pro region is required for activity.
  Journal of bacteriology 1989 Silen JL, Frank D, Fujishige A, Bone R, Agard DA
• Fluorescence microscopy in three dimensions.
  Methods in cell biology 1989 Agard DA, Hiraoka Y, Shaw P, Sedat JW
• Solid-state imagers for microscopy.
  Methods in cell biology 1989 Aikens RS, Agard DA, Sedat JW
• Tilted view reconstruction in optical microscopy. Three-dimensional reconstruction of Drosophila melanogaster embryo nuclei.
  Biophysical journal 1989 Shaw PJ, Agard DA, Hiraoka Y, Sedat JW
• Kinetic properties of the binding of alpha-lytic protease to peptide boronic acids.
  Biochemistry 1988 Kettner CA, Bone R, Agard DA, Bachovchin WW
• Molecular analysis of the gene encoding alpha-lytic protease: evidence for a preproenzyme.
  Gene 1988 Silen JL, McGrath CN, Smith KR, Agard DA
• Precise determination of the molecular limits of a polytene chromosome band: regulatory sequences for the Notch gene are in the interband.
  Cell 1988 Rykowski MC, Parmelee SJ, Agard DA, Sedat JW
• Crystallization and preliminary X-ray diffraction studies on the amino-terminal (receptor-binding) domain of human apolipoprotein E3 from serum very low density lipoproteins.
  Journal of molecular biology 1988 Aggerbeck LP, Wetterau JR, Weisgraber KH, Mahley RW, Agard DA
• Three-dimensional light microscopy of diploid Drosophila chromosomes.
  Cell motility and the cytoskeleton 1988 Agard DA, Hiraoka Y, Sedat JW
• Serine protease mechanism: structure of an inhibitory complex of alpha-lytic protease and a tightly bound peptide boronic acid.
  Biochemistry 1987 Bone R, Shenvi AB, Kettner CA, Agard DA
• The use of a charge-coupled device for quantitative optical microscopy of biological structures.
  Science (New York, N.Y.) 1987 Hiraoka Y, Sedat JW, Agard DA
• [Hepatonephritis caused by piroxicam].
  Gastroenterologie clinique et biologique 1987 Marsepoil T, Levesque P, Agard D, Dubeaux P, Blin F
• A three-dimensional approach to mitotic chromosome structure: evidence for a complex hierarchical organization.
  The Journal of cell biology 1987 Belmont AS, Sedat JW, Agard DA
• Quantitative analysis of nucleic acids, proteins, and viruses by Raman band deconvolution.
  Biophysical journal 1984 Thomas GJ, Agard DA
• [Anorectal manifestations of sexually transmissible diseases. Kaposi's sarcoma].
  Annales de gastroenterologie et d'hepatologie 1984 Libeskind M, Malbran J, Agard D, Pannetier C, Lecouillard C, Ivanovic A
• Optical sectioning microscopy: cellular architecture in three dimensions.
  Annual review of biophysics and bioengineering 1984 Agard DA
• Spatial organization of the Drosophila nucleus: a three-dimensional cytogenetic study.
  Journal of cell science. Supplement 1984 Gruenbaum Y, Hochstrasser M, Mathog D, Saumweber H, Agard DA, Sedat JW
• A least-squares method for determining structure factors in three-dimensional tilted-view reconstructions.
  Journal of molecular biology 1983 Agard DA
• Three-dimensional architecture of a polytene nucleus.
  Nature 1983 Agard DA, Sedat JW
• [Syndrome of inappropriate antidiuretic hormone secretion. A report of two cases with hyponatremia and hypouricemia].
  La semaine des hopitaux : organe fonde par l'Association d'enseignement medical des hopitaux de Paris 1982 Malbran J, Agard D, Libeskind M, Redelsperger PY, Lecouillard C, Pannetier C
• Linking regions between helices in bacteriorhodopsin revealed.
  Biophysical journal 1982 Agard DA, Stroud RM
• Studies on the phosphorylation and synthesis of type I regulatory subunit of cyclic AMP-dependent protein kinase in intact S49 mouse lymphoma cells.
  The Journal of biological chemistry 1981 Steinberg RA, Agard DA
• Turnover of regulatory subunit of cyclic AMP-dependent protein kinase in S49 mouse lymphoma cells. Regulation by catalytic subunit and analogs of cyclic AMP.
  The Journal of biological chemistry 1981 Steinberg RA, Agard DA
• Quantitative analysis of electrophoretograms: a mathematical approach to super-resolution.
  Analytical biochemistry 1981 Agard DA, Steinberg RA, Stroud RM
• [Hemorrhoids. Physiopathogenic concepts and approach to a rational treatment].
  Gastroenterologie clinique et biologique 1979 Libeskind M, Lugagne F, Malbran J, Agard D, Redelsperger PY
• Structure determination of asymmetric membrane profiles using an iterative Fourier method.
  Biophysical journal 1979 Stroud RM, Agard DA
• [Gastrointestinal haemorrhage in the cirrhotic. The value of injectable posterior pituitary extract (author's transl)].
  La Nouvelle presse medicale 1978 Libeskind M, Malbran J, Lugagne F, Redelsperger PY, Bourgeois J, Agard D
• [The excision of villous tumours of the rectum via a trans-sphincterian anal approach (author's transl)].
  La Nouvelle presse medicale 1978 Libeskind M, Lugagne F, Malbran J, Agard D, Redelsperger PY
• [Secondary melanomas of the liver. Appropos of 3 cases with hepatic symptomatology].
  Medecine & chirurgie digestives 1978 Libeskind M, Redelsperger PY, Lugagne F, Malbran J, Agard D
• Structural studies of a membrane-bound acetylcholine receptor from Torpedo californica.
  Journal of molecular biology 1977 Ross MJ, Klymkowsky MW, Agard DA, Stroud RM
• [Systemic amyloidosis and multiple myeloma. Report of a case with the association of light chain myeloma and gastric plasmacytosis (author's transl)].
  Gastroenterologie clinique et biologique 1977 Libeskind M, Malbran J, Lugagne F, Agard D, Gatineau-Saillant C, Guyet-Rousset P