 Dave Agard, PhD
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| Title | Professor |
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| School | UCSF School of Medicine |
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| Department | Biochemistry & Biophysics |
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| Address | 600 16th Street
San Francisco CA 94143
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| Phone | 415-476-2521 |
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| Title | Howard Hughes Investigator |
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 Bibliographic
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications.
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Genest O, Reidy M, Street TO, Hoskins JR, Camberg JL, Agard DA, Masison DC, Wickner S. Uncovering a Region of Heat Shock Protein 90 Important for Client Binding in E. coli and Chaperone Function in Yeast. Mol Cell. 2013 Feb 7; 49(3):464-73.
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Abrahamsson S, Chen J, Hajj B, Stallinga S, Katsov AY, Wisniewski J, Mizuguchi G, Soule P, Mueller F, Darzacq CD, Darzacq X, Wu C, Bargmann CI, Agard DA, Dahan M, Gustafsson MG. Fast multicolor 3D imaging using aberration-corrected multifocus microscopy. Nat Methods. 2013 Jan; 10(1):60-3.
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Ozyamak E, Kollman J, Agard DA, Komeili A. The Bacterial Actin MamK: IN VITRO ASSEMBLY BEHAVIOR AND FILAMENT ARCHITECTURE. J Biol Chem. 2013 Feb 8; 288(6):4265-77.
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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. A method for integrative structure determination of protein-protein complexes. Bioinformatics. 2012 Dec 1; 28(24):3282-9.
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Mennella V, Keszthelyi B, McDonald KL, Chhun B, Kan F, Rogers GC, Huang B, Agard DA. Subdiffraction-resolution fluorescence microscopy reveals a domain of the centrosome critical for pericentriolar material organization. Nat Cell Biol. 2012 Nov; 14(11):1159-68.
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Cunningham CN, Southworth DR, Krukenberg KA, Agard DA. The conserved arginine 380 of Hsp90 is not a catalytic residue, but stabilizes the closed conformation required for ATP hydrolysis. Protein Sci. 2012 Aug; 21(8):1162-71.
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Kraemer JA, Erb ML, Waddling CA, Montabana EA, Zehr EA, Wang H, Nguyen K, Pham DS, Agard DA, Pogliano J. A phage tubulin assembles dynamic filaments by an atypical mechanism to center viral DNA within the host cell. Cell. 2012 Jun 22; 149(7):1488-99.
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Kelch BA, Salimi NL, Agard DA. Functional modulation of a protein folding landscape via side-chain distortion. Proc Natl Acad Sci U S A. 2012 Jun 12; 109(24):9414-9.
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Shao L, Winoto L, Agard DA, Gustafsson MG, Sedat JW. Interferometer-based structured-illumination microscopy utilizing complementary phase relationship through constructive and destructive image detection by two cameras. J Microsc. 2012 Jun; 246(3):229-36.
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Arigovindan M, Sedat JW, Agard DA. Effect of depth dependent spherical aberrations in 3D structured illumination microscopy. Opt Express. 2012 Mar 12; 20(6):6527-41.
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Li S, Fernandez JJ, Marshall WF, Agard DA. Three-dimensional structure of basal body triplet revealed by electron cryo-tomography. EMBO J. 2012 Feb 1; 31(3):552-62.
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Street TO, Lavery LA, Verba KA, Lee CT, Mayer MP, Agard DA. Cross-monomer substrate contacts reposition the Hsp90 N-terminal domain and prime the chaperone activity. J Mol Biol. 2012 Jan 6; 415(1):3-15.
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Kollman JM, Merdes A, Mourey L, Agard DA. Microtubule nucleation by ?-tubulin complexes. Nat Rev Mol Cell Biol. 2011 Nov; 12(11):709-21.
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Alexander LD, Partridge JR, Agard DA, McAlpine SR. A small molecule that preferentially binds the closed conformation of Hsp90. Bioorg Med Chem Lett. 2011 Dec 1; 21(23):7068-71.
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Guillet V, Knibiehler M, Gregory-Pauron L, Remy MH, Chemin C, Raynaud-Messina B, Bon C, Kollman JM, Agard DA, Merdes A, Mourey L. Crystal structure of ?-tubulin complex protein GCP4 provides insight into microtubule nucleation. Nat Struct Mol Biol. 2011 Aug; 18(8):915-9.
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Southworth DR, Agard DA. Client-loading conformation of the Hsp90 molecular chaperone revealed in the cryo-EM structure of the human Hsp90:Hop complex. Mol Cell. 2011 Jun 24; 42(6):771-81.
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Gopalakrishnan J, Mennella V, Blachon S, Zhai B, Smith AH, Megraw TL, Nicastro D, Gygi SP, Agard DA, Avidor-Reiss T. Sas-4 provides a scaffold for cytoplasmic complexes and tethers them in a centrosome. Nat Commun. 2011; 2:359.
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Street TO, Lavery LA, Agard DA. Substrate binding drives large-scale conformational changes in the Hsp90 molecular chaperone. Mol Cell. 2011 Apr 8; 42(1):96-105.
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Zheng SQ, Branlund E, Kesthelyi B, Braunfeld MB, Cheng Y, Sedat JW, Agard DA. A distributed multi-GPU system for high speed electron microscopic tomographic reconstruction. Ultramicroscopy. 2011 Jul; 111(8):1137-43.
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Krukenberg KA, Street TO, Lavery LA, Agard DA. Conformational dynamics of the molecular chaperone Hsp90. Q Rev Biophys. 2011 May; 44(2):229-55.
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Rivera CR, Kollman JM, Polka JK, Agard DA, Mullins RD. Architecture and assembly of a divergent member of the ParM family of bacterial actin-like proteins. J Biol Chem. 2011 Apr 22; 286(16):14282-90.
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Ho BK, Agard DA. An improved strategy for generating forces in steered molecular dynamics: the mechanical unfolding of titin, e2lip3 and ubiquitin. PLoS One. 2010; 5(9).
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Matsuda A, Shao L, Boulanger J, Kervrann C, Carlton PM, Kner P, Agard D, Sedat JW. Condensed mitotic chromosome structure at nanometer resolution using PALM and EGFP- histones. PLoS One. 2010; 5(9):e12768.
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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. Fast live simultaneous multiwavelength four-dimensional optical microscopy. Proc Natl Acad Sci U S A. 2010 Sep 14; 107(37):16016-22.
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Kollman JM, Polka JK, Zelter A, Davis TN, Agard DA. Microtubule nucleating gamma-TuSC assembles structures with 13-fold microtubule-like symmetry. Nature. 2010 Aug 12; 466(7308):879-82.
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Xu W, Xu F, Jones M, Keszthelyi B, Sedat J, Agard D, Mueller K. High-performance iterative electron tomography reconstruction with long-object compensation using graphics processing units (GPUs). J Struct Biol. 2010 Aug; 171(2):142-53.
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Arigovindan M, Shaevitz J, McGowan J, Sedat JW, Agard DA. A Parallel Product-Convolution approach for representing the depth varying Point Spread Functions in 3D widefield microscopy based on principal component analysis. Opt Express. 2010 Mar 29; 18(7):6461-76.
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Ho BK, Agard DA. Conserved tertiary couplings stabilize elements in the PDZ fold, leading to characteristic patterns of domain conformational flexibility. Protein Sci. 2010 Mar; 19(3):398-411.
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Salimi NL, Ho B, Agard DA. Unfolding simulations reveal the mechanism of extreme unfolding cooperativity in the kinetically stable alpha-lytic protease. PLoS Comput Biol. 2010 Feb; 6(2):e1000689.
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Kner P, Sedat JW, Agard DA, Kam Z. High-resolution wide-field microscopy with adaptive optics for spherical aberration correction and motionless focusing. J Microsc. 2010 Feb; 237(2):136-47.
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Gopalakrishnan J, Guichard P, Smith AH, Schwarz H, Agard DA, Marco S, Avidor-Reiss T. Self-assembling SAS-6 multimer is a core centriole building block. J Biol Chem. 2010 Mar 19; 285(12):8759-70.
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Street TO, Krukenberg KA, Rosgen J, Bolen DW, Agard DA. Osmolyte-induced conformational changes in the Hsp90 molecular chaperone. Protein Sci. 2010 Jan; 19(1):57-65.
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Zheng SQ, Sedat JW, Agard DA. Automated data collection for electron microscopic tomography. Methods Enzymol. 2010; 481:283-315.
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Xu F, Xu W, Jones M, Keszthelyi B, Sedat J, Agard D, Mueller K. On the efficiency of iterative ordered subset reconstruction algorithms for acceleration on GPUs. Comput Methods Programs Biomed. 2010 Jun; 98(3):261-70.
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Krukenberg KA, Böttcher UM, Southworth DR, Agard DA. Grp94, the endoplasmic reticulum Hsp90, has a similar solution conformation to cytosolic Hsp90 in the absence of nucleotide. Protein Sci. 2009 Sep; 18(9):1815-27.
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Choy RM, Kollman JM, Zelter A, Davis TN, Agard DA. Localization and orientation of the gamma-tubulin small complex components using protein tags as labels for single particle EM. J Struct Biol. 2009 Dec; 168(3):571-4.
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Polka JK, Kollman JM, Agard DA, Mullins RD. The structure and assembly dynamics of plasmid actin AlfA imply a novel mechanism of DNA segregation. J Bacteriol. 2009 Oct; 191(20):6219-30.
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Zheng SQ, Matsuda A, Braunfeld MB, Sedat JW, Agard DA. Dual-axis target mapping and automated sequential acquisition of dual-axis EM tomographic data. J Struct Biol. 2009 Nov; 168(2):323-31.
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Krukenberg KA, Southworth DR, Street TO, 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. J Mol Biol. 2009 Jul 10; 390(2):278-91.
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Suloway C, Shi J, Cheng A, Pulokas J, Carragher B, Potter CS, Zheng SQ, Agard DA, Jensen GJ. Fully automated, sequential tilt-series acquisition with Leginon. J Struct Biol. 2009 Jul; 167(1):11-8.
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Ho BK, Agard DA. Probing the flexibility of large conformational changes in protein structures through local perturbations. PLoS Comput Biol. 2009 Apr; 5(4):e1000343.
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Southworth DR, Agard DA. Species-dependent ensembles of conserved conformational states define the Hsp90 chaperone ATPase cycle. Mol Cell. 2008 Dec 5; 32(5):631-40.
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Nölting B, Agard DA. How general is the nucleation-condensation mechanism? Proteins. 2008 Nov 15; 73(3):754-64.
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Ho BK, Agard DA. Identification of new, well-populated amino-acid sidechain rotamers involving hydroxyl-hydrogen atoms and sulfhydryl-hydrogen atoms. BMC Struct Biol. 2008; 8:41.
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Förster F, Webb B, Krukenberg KA, Tsuruta H, Agard DA, Sali A. Integration of small-angle X-ray scattering data into structural modeling of proteins and their assemblies. J Mol Biol. 2008 Oct 17; 382(4):1089-106.
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Schermelleh L, Carlton PM, Haase S, Shao L, Winoto L, Kner P, Burke B, Cardoso MC, Agard DA, Gustafsson MG, Leonhardt H, Sedat JW. Subdiffraction multicolor imaging of the nuclear periphery with 3D structured illumination microscopy. Science. 2008 Jun 6; 320(5881):1332-6.
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Cunningham CN, Krukenberg KA, Agard DA. Intra- and intermonomer interactions are required to synergistically facilitate ATP hydrolysis in Hsp90. J Biol Chem. 2008 Jul 25; 283(30):21170-8.
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Krukenberg KA, Förster F, Rice LM, Sali A, Agard DA. Multiple conformations of E. coli Hsp90 in solution: insights into the conformational dynamics of Hsp90. Structure. 2008 May; 16(5):755-65.
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Trammell MA, Mahoney NM, Agard DA, Vale RD. Mob4 plays a role in spindle focusing in Drosophila S2 cells. J Cell Sci. 2008 Apr 15; 121(Pt 8):1284-92.
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Rice LM, Montabana EA, Agard DA. The lattice as allosteric effector: structural studies of alphabeta- and gamma-tubulin clarify the role of GTP in microtubule assembly. Proc Natl Acad Sci U S A. 2008 Apr 8; 105(14):5378-83.
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Gustafsson MG, Shao L, Carlton PM, Wang CJ, Golubovskaya IN, Cande WZ, Agard DA, Sedat JW. Three-dimensional resolution doubling in wide-field fluorescence microscopy by structured illumination. Biophys J. 2008 Jun; 94(12):4957-70.
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Shao L, Isaac B, Uzawa S, Agard DA, Sedat JW, Gustafsson MG. I5S: wide-field light microscopy with 100-nm-scale resolution in three dimensions. Biophys J. 2008 Jun; 94(12):4971-83.
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Kollman JM, Zelter A, Muller EG, Fox B, Rice LM, Davis TN, Agard DA. The structure of the gamma-tubulin small complex: implications of its architecture and flexibility for microtubule nucleation. Mol Biol Cell. 2008 Jan; 19(1):207-15.
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Hom EF, Marchis F, Lee TK, Haase S, Agard DA, Sedat JW. AIDA: an adaptive image deconvolution algorithm with application to multi-frame and three-dimensional data. J Opt Soc Am A Opt Image Sci Vis. 2007 Jun; 24(6):1580-600.
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Kelch BA, Agard DA. Mesophile versus thermophile: insights into the structural mechanisms of kinetic stability. J Mol Biol. 2007 Jul 20; 370(4):784-95.
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Kam Z, Kner P, Agard D, Sedat JW. Modelling the application of adaptive optics to wide-field microscope live imaging. J Microsc. 2007 Apr; 226(Pt 1):33-42.
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König P, Braunfeld MB, Sedat JW, Agard DA. The three-dimensional structure of in vitro reconstituted Xenopus laevis chromosomes by EM tomography. Chromosoma. 2007 Aug; 116(4):349-72.
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Kelch BA, Eagen KP, Erciyas FP, Humphris EL, Thomason AR, Mitsuiki S, Agard DA. Structural and mechanistic exploration of acid resistance: kinetic stability facilitates evolution of extremophilic behavior. J Mol Biol. 2007 May 4; 368(3):870-83.
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Zheng SQ, Kollman JM, Braunfeld MB, Sedat JW, Agard DA. Automated acquisition of electron microscopic random conical tilt sets. J Struct Biol. 2007 Jan; 157(1):148-55.
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Shiau AK, Harris SF, Southworth DR, Agard DA. Structural Analysis of E. coli hsp90 reveals dramatic nucleotide-dependent conformational rearrangements. Cell. 2006 Oct 20; 127(2):329-40.
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Wei B, Lam PG, Braunfeld MB, Agard DA, Genzer J, Spontak RJ. Tunable instability mechanisms of polymer thin films by molecular self-assembly. Langmuir. 2006 Oct 10; 22(21):8642-5.
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Yonekura K, Braunfeld MB, Maki-Yonekura S, Agard DA. Electron energy filtering significantly improves amplitude contrast of frozen-hydrated protein at 300kV. J Struct Biol. 2006 Dec; 156(3):524-36.
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Fuhrmann CN, Daugherty MD, 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. J Am Chem Soc. 2006 Jul 19; 128(28):9086-102.
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Zheng SQ, Keszthelyi B, Branlund E, Lyle JM, Braunfeld MB, Sedat JW, Agard DA. UCSF tomography: an integrated software suite for real-time electron microscopic tomographic data collection, alignment, and reconstruction. J Struct Biol. 2007 Jan; 157(1):138-47.
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Truhlar SM, 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 Oct 1; 61(1):105-14.
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Ota N, Agard DA. Intramolecular signaling pathways revealed by modeling anisotropic thermal diffusion. J Mol Biol. 2005 Aug 12; 351(2):345-54.
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Moss WC, Haase S, Lyle JM, Agard DA, Sedat JW. A novel 3D wavelet-based filter for visualizing features in noisy biological data. J Microsc. 2005 Aug; 219(Pt 2):43-9.
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Aldaz H, Rice LM, Stearns T, Agard DA. Insights into microtubule nucleation from the crystal structure of human gamma-tubulin. Nature. 2005 May 26; 435(7041):523-7.
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Jaswal SS, Truhlar SM, Dill KA, Agard DA. Comprehensive analysis of protein folding activation thermodynamics reveals a universal behavior violated by kinetically stable proteases. J Mol Biol. 2005 Mar 25; 347(2):355-66.
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König P, Braunfeld M, Agard DA. Use of surface affinity enrichment and cryo-embedding to prepare in vitro reconstituted mitotic chromosomes for EM tomography. Ultramicroscopy. 2005 Jul; 103(4):261-74.
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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, Agard DA, Padmore HA. Suite of three protein crystallography beamlines with single superconducting bend magnet as the source. J Synchrotron Radiat. 2004 Nov 1; 11(Pt 6):447-55.
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Hanser BM, Gustafsson MG, Agard DA, Sedat JW. Phase-retrieved pupil functions in wide-field fluorescence microscopy. J Microsc. 2004 Oct; 216(Pt 1):32-48.
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Uzawa S, Li F, Jin Y, McDonald KL, Braunfeld MB, Agard DA, Cande WZ. 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+. Mol Biol Cell. 2004 Dec; 15(12):5219-30.
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Zheng QS, Braunfeld MB, Sedat JW, Agard DA. An improved strategy for automated electron microscopic tomography. J Struct Biol. 2004 Aug; 147(2):91-101.
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Harris SF, Shiau AK, Agard DA. The crystal structure of the carboxy-terminal dimerization domain of htpG, the Escherichia coli Hsp90, reveals a potential substrate binding site. Structure. 2004 Jun; 12(6):1087-97.
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Fuhrmann CN, Kelch BA, Ota N, 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. J Mol Biol. 2004 May 14; 338(5):999-1013.
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Cunningham EL, Agard DA. Disabling the folding catalyst is the last critical step in alpha-lytic protease folding. Protein Sci. 2004 Feb; 13(2):325-31.
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Truhlar SM, Cunningham EL, Agard DA. The folding landscape of Streptomyces griseus protease B reveals the energetic costs and benefits associated with evolving kinetic stability. Protein Sci. 2004 Feb; 13(2):381-90.
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Cunningham EL, Agard DA. Interdependent folding of the N- and C-terminal domains defines the cooperative folding of alpha-lytic protease. Biochemistry. 2003 Nov 18; 42(45):13212-9.
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Hanser BM, Gustafsson MG, Agard DA, Sedat JW. Phase retrieval for high-numerical-aperture optical systems. Opt Lett. 2003 May 15; 28(10):801-3.
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Kuntz ID, Agard DA. Assessment of the role of computations in structural biology. Adv Protein Chem. 2003; 66:1-25.
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Chen CY, Reese ML, Hwang PK, Ota N, Agard D, Brodsky FM. Clathrin light and heavy chain interface: alpha-helix binding superhelix loops via critical tryptophans. EMBO J. 2002 Nov 15; 21(22):6072-82.
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Rice LM, Agard DA. Centriole duplication: centrin in on answers? Curr Biol. 2002 Sep 17; 12(18):R618-9.
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Cunningham EL, Mau T, Truhlar SM, Agard DA. The pro region N-terminal domain provides specific interactions required for catalysis of alpha-lytic protease folding. Biochemistry. 2002 Jul 16; 41(28):8860-7.
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Shiau AK, Barstad D, Radek JT, Meyers MJ, Nettles KW, Katzenellenbogen BS, Katzenellenbogen JA, Agard DA, Greene GL. Structural characterization of a subtype-selective ligand reveals a novel mode of estrogen receptor antagonism. Nat Struct Biol. 2002 May; 9(5):359-64.
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Wille H, Michelitsch MD, Guenebaut V, Supattapone S, Serban A, Cohen FE, Agard DA, Prusiner SB. Structural studies of the scrapie prion protein by electron crystallography. Proc Natl Acad Sci U S A. 2002 Mar 19; 99(6):3563-8.
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Jaswal SS, Sohl JL, Davis JH, Agard DA. Energetic landscape of alpha-lytic protease optimizes longevity through kinetic stability. Nature. 2002 Jan 17; 415(6869):343-6.
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Tonelli M, Peters RJ, James TL, Agard DA. The solution structure of the viral binding domain of Tva, the cellular receptor for subgroup A avian leukosis and sarcoma virus. FEBS Lett. 2001 Dec 7; 509(2):161-8.
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Ota N, Agard DA. Binding mode prediction for a flexible ligand in a flexible pocket using multi-conformation simulated annealing pseudo crystallographic refinement. J Mol Biol. 2001 Nov 30; 314(3):607-17.
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Murphy SM, Preble AM, Patel UK, O'Connell KL, Dias DP, Moritz M, Agard D, Stults JT, Stearns T. GCP5 and GCP6: two new members of the human gamma-tubulin complex. Mol Biol Cell. 2001 Nov; 12(11):3340-52.
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Ota N, Agard DA. Enzyme specificity under dynamic control II: Principal component analysis of alpha-lytic protease using global and local solvent boundary conditions. Protein Sci. 2001 Jul; 10(7):1403-14.
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Marshall WF, Marko JF, Agard DA, Sedat JW. Chromosome elasticity and mitotic polar ejection force measured in living Drosophila embryos by four-dimensional microscopy-based motion analysis. Curr Biol. 2001 Apr 17; 11(8):569-78.
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Moritz M, Agard DA. Gamma-tubulin complexes and microtubule nucleation. Curr Opin Struct Biol. 2001 Apr; 11(2):174-81.
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Kam Z, Hanser B, Gustafsson MG, Agard DA, Sedat JW. Computational adaptive optics for live three-dimensional biological imaging. Proc Natl Acad Sci U S A. 2001 Mar 27; 98(7):3790-5.
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Moritz M, Braunfeld MB, Alberts BM, Agard DA. Reconstitution of centrosome microtubule nucleation in Drosophila. Methods Cell Biol. 2001; 67:141-8.
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Kushner PJ, Agard DA, Greene GL, Scanlan TS, Shiau AK, Uht RM, Webb P. Estrogen receptor pathways to AP-1. J Steroid Biochem Mol Biol. 2000 Nov 30; 74(5):311-7.
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Moritz M, Braunfeld MB, Guénebaut V, Heuser J, Agard DA. Structure of the gamma-tubulin ring complex: a template for microtubule nucleation. Nat Cell Biol. 2000 Jun; 2(6):365-70.
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Derman AI, Agard DA. Two energetically disparate folding pathways of alpha-lytic protease share a single transition state. Nat Struct Biol. 2000 May; 7(5):394-7.
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Bass HW, Riera-Lizarazu O, Ananiev EV, Bordoli SJ, Rines HW, Phillips RL, Sedat JW, Agard DA, Cande WZ. Evidence for the coincident initiation of homolog pairing and synapsis during the telomere-clustering (bouquet) stage of meiotic prophase. J Cell Sci. 2000 Mar; 113 ( Pt 6):1033-42.
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Jinnai H, Nishikawa Y, Spontak RJ, Smith SD, Agard DA, Hashimoto T. Direct measurement of interfacial curvature distributions in a bicontinuous block copolymer morphology. Phys Rev Lett. 2000 Jan 17; 84(3):518-21.
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Kushner PJ, Agard D, Feng WJ, Lopez G, Schiau A, Uht R, Webb P, Greene G. Oestrogen receptor function at classical and alternative response elements. Novartis Found Symp. 2000; 230:20-6; discussion 27-40.
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Cunningham EL, Jaswal SS, Sohl JL, Agard DA. Kinetic stability as a mechanism for protease longevity. Proc Natl Acad Sci U S A. 1999 Sep 28; 96(20):11008-14.
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Gustafsson MG, Agard DA, Sedat JW. I5M: 3D widefield light microscopy with better than 100 nm axial resolution. J Microsc. 1999 Jul; 195(Pt 1):10-6.
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Anderson DE, Peters RJ, Wilk B, Agard DA. alpha-lytic protease precursor: characterization of a structured folding intermediate. Biochemistry. 1999 Apr 13; 38(15):4728-35.
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Miller DW, Agard DA. Enzyme specificity under dynamic control: a normal mode analysis of alpha-lytic protease. J Mol Biol. 1999 Feb 12; 286(1):267-78.
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Shiau AK, Barstad D, Loria PM, Cheng L, Kushner PJ, Agard DA, Greene GL. The structural basis of estrogen receptor/coactivator recognition and the antagonism of this interaction by tamoxifen. Cell. 1998 Dec 23; 95(7):927-37.
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Sauter NK, Mau T, Rader SD, Agard DA. Structure of alpha-lytic protease complexed with its pro region. Nat Struct Biol. 1998 Nov; 5(11):945-50.
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Sohl JL, Jaswal SS, Agard DA. Unfolded conformations of alpha-lytic protease are more stable than its native state. Nature. 1998 Oct 22; 395(6704):817-9.
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Peters RJ, Shiau AK, Sohl JL, Anderson DE, Tang G, Silen JL, Agard DA. Pro region C-terminus:protease active site interactions are critical in catalyzing the folding of alpha-lytic protease. Biochemistry. 1998 Sep 1; 37(35):12058-67.
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Davis JH, Agard DA. Relationship between enzyme specificity and the backbone dynamics of free and inhibited alpha-lytic protease. Biochemistry. 1998 May 26; 37(21):7696-707.
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Fung JC, Marshall WF, Dernburg A, Agard DA, Sedat JW. Homologous chromosome pairing in Drosophila melanogaster proceeds through multiple independent initiations. J Cell Biol. 1998 Apr 6; 141(1):5-20.
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Hernandez LD, Peters RJ, Delos SE, Young JA, Agard DA, White JM. Activation of a retroviral membrane fusion protein: soluble receptor-induced liposome binding of the ALSV envelope glycoprotein. J Cell Biol. 1997 Dec 15; 139(6):1455-64.
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Han KF, Sedat JW, Agard DA. Practical image restoration of thick biological specimens using multiple focus levels in transmission electron microscopy. J Struct Biol. 1997 Dec; 120(3):237-44.
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Marshall WF, Straight A, Marko JF, Swedlow J, Dernburg A, Belmont A, Murray AW, Agard DA, Sedat JW. Interphase chromosomes undergo constrained diffusional motion in living cells. Curr Biol. 1997 Dec 1; 7(12):930-9.
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Davis JH, Agard DA, Handel TM, Basus VJ. Alterations in chemical shifts and exchange broadening upon peptide boronic acid inhibitor binding to alpha-lytic protease. J Biomol NMR. 1997 Jul; 10(1):21-7.
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Rader SD, Agard DA. Conformational substates in enzyme mechanism: the 120 K structure of alpha-lytic protease at 1.5 A resolution. Protein Sci. 1997 Jul; 6(7):1375-86.
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Bass HW, Marshall WF, Sedat JW, Agard DA, Cande WZ. Telomeres cluster de novo before the initiation of synapsis: a three-dimensional spatial analysis of telomere positions before and during meiotic prophase. J Cell Biol. 1997 Apr 7; 137(1):5-18.
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Sohl JL, Shiau AK, Rader SD, Wilk BJ, Agard DA. Inhibition of alpha-lytic protease by pro region C-terminal steric occlusion of the active site. Biochemistry. 1997 Apr 1; 36(13):3894-902.
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Han KF, Gubbens AJ, Sedat JW, Agard DA. Optimal strategies for imaging thick biological specimens: exit wavefront reconstruction and energy-filtered imaging. J Microsc. 1996 Aug; 183(Pt 2):124-32.
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Dernburg AF, Broman KW, Fung JC, Marshall WF, Philips J, Agard DA, Sedat JW. Perturbation of nuclear architecture by long-distance chromosome interactions. Cell. 1996 May 31; 85(5):745-59.
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Marshall WF, Dernburg AF, Harmon B, Agard DA, Sedat JW. Specific interactions of chromatin with the nuclear envelope: positional determination within the nucleus in Drosophila melanogaster. Mol Biol Cell. 1996 May; 7(5):825-42.
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Scalettar BA, Swedlow JR, Sedat JW, Agard DA. Dispersion, aberration and deconvolution in multi-wavelength fluorescence images. J Microsc. 1996 Apr; 182(Pt 1):50-60.
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Paddy MR, Saumweber H, Agard DA, Sedat JW. Time-resolved, in vivo studies of mitotic spindle formation and nuclear lamina breakdown in Drosophila early embryos. J Cell Sci. 1996 Mar; 109 ( Pt 3):591-607.
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Fung JC, Liu W, de Ruijter WJ, Chen H, Abbey CK, Sedat JW, Agard DA. Toward fully automated high-resolution electron tomography. J Struct Biol. 1996 Jan-Feb; 116(1):181-9.
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Chen H, Hughes DD, Chan TA, Sedat JW, Agard DA. IVE (Image Visualization Environment): a software platform for all three-dimensional microscopy applications. J Struct Biol. 1996 Jan-Feb; 116(1):56-60.
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Mace JE, Agard DA. Kinetic and structural characterization of mutations of glycine 216 in alpha-lytic protease: a new target for engineering substrate specificity. J Mol Biol. 1995 Dec 8; 254(4):720-36.
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Moritz M, Braunfeld MB, Sedat JW, Alberts B, Agard DA. Microtubule nucleation by gamma-tubulin-containing rings in the centrosome. Nature. 1995 Dec 7; 378(6557):638-40.
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Urata Y, Parmelee SJ, Agard DA, Sedat JW. A three-dimensional structural dissection of Drosophila polytene chromosomes. J Cell Biol. 1995 Oct; 131(2):279-95.
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Moritz M, Braunfeld MB, Fung JC, Sedat JW, Alberts BM, Agard DA. Three-dimensional structural characterization of centrosomes from early Drosophila embryos. J Cell Biol. 1995 Sep; 130(5):1149-59.
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Mace JE, Wilk BJ, 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. J Mol Biol. 1995 Aug 4; 251(1):116-34.
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Han KF, Sedat JW, Agard DA. Mechanism of image formation for thick biological specimens: exit wavefront reconstruction and electron energy-loss spectroscopic imaging. J Microsc. 1995 May; 178(Pt 2):107-19.
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Baker D, Agard DA. Influenza hemagglutinin: kinetic control of protein function. Structure. 1994 Oct 15; 2(10):907-10.
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Dong LM, Wilson C, Wardell MR, Simmons T, Mahley RW, Weisgraber KH, Agard DA. Human apolipoprotein E. Role of arginine 61 in mediating the lipoprotein preferences of the E3 and E4 isoforms. J Biol Chem. 1994 Sep 2; 269(35):22358-65.
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Wilson C, Mau T, Weisgraber KH, Wardell MR, Mahley RW, Agard DA. Salt bridge relay triggers defective LDL receptor binding by a mutant apolipoprotein. Structure. 1994 Aug 15; 2(8):713-8.
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Baker D, Agard DA. Kinetics versus thermodynamics in protein folding. Biochemistry. 1994 Jun 21; 33(24):7505-9.
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Braunfeld MB, Koster AJ, Sedat JW, Agard DA. Cryo automated electron tomography: towards high-resolution reconstructions of plastic-embedded structures. J Microsc. 1994 May; 174(Pt 2):75-84.
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Horowitz RA, Agard DA, Sedat JW, Woodcock CL. The three-dimensional architecture of chromatin in situ: electron tomography reveals fibers composed of a continuously variable zig-zag nucleosomal ribbon. J Cell Biol. 1994 Apr; 125(1):1-10.
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Dawe RK, Sedat JW, Agard DA, Cande WZ. Meiotic chromosome pairing in maize is associated with a novel chromatin organization. Cell. 1994 Mar 11; 76(5):901-12.
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Baker D, Shiau AK, Agard DA. The role of pro regions in protein folding. Curr Opin Cell Biol. 1993 Dec; 5(6):966-70.
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Baker D, Bystroff C, Fletterick RJ, Agard DA. PRISM: topologically constrained phased refinement for macromolecular crystallography. Acta Crystallogr D Biol Crystallogr. 1993 Sep 1; 49(Pt 5):429-39.
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Bystroff C, Baker D, Fletterick RJ, Agard DA. PRISM: application to the solution of two protein structures. Acta Crystallogr D Biol Crystallogr. 1993 Sep 1; 49(Pt 5):440-8.
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Agard DA. To fold or not to fold.... Science. 1993 Jun 25; 260(5116):1903-4.
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Swedlow JR, Agard DA, Sedat JW. Chromosome structure inside the nucleus. Curr Opin Cell Biol. 1993 Jun; 5(3):412-6.
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Swedlow JR, Sedat JW, Agard DA. Multiple chromosomal populations of topoisomerase II detected in vivo by time-lapse, three-dimensional wide-field microscopy. Cell. 1993 Apr 9; 73(1):97-108.
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Wilson C, Gregoret LM, Agard DA. Modeling side-chain conformation for homologous proteins using an energy-based rotamer search. J Mol Biol. 1993 Feb 20; 229(4):996-1006.
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Hiraoka Y, Dernburg AF, Parmelee SJ, Rykowski MC, Agard DA, Sedat JW. The onset of homologous chromosome pairing during Drosophila melanogaster embryogenesis. J Cell Biol. 1993 Feb; 120(3):591-600.
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Baker D, Krukowski AE, Agard DA. Uniqueness and the ab initio phase problem in macromolecular crystallography. Acta Crystallogr D Biol Crystallogr. 1993 Jan 1; 49(Pt 1):186-92.
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Koster AJ, Chen H, Sedat JW, Agard DA. Automated microscopy for electron tomography. Ultramicroscopy. 1992 Oct; 46(1-4):207-27.
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Paddy MR, Agard DA, Sedat JW. An extended view of nuclear lamin structure, function, and dynamics. Semin Cell Biol. 1992 Aug; 3(4):255-66.
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Fujishige A, Smith KR, Silen JL, Agard DA. Correct folding of alpha-lytic protease is required for its extracellular secretion from Escherichia coli. J Cell Biol. 1992 Jul; 118(1):33-42.
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Baker D, Silen JL, Agard DA. Protease pro region required for folding is a potent inhibitor of the mature enzyme. Proteins. 1992 Apr; 12(4):339-44.
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Baker D, Sohl JL, Agard DA. A protein-folding reaction under kinetic control. Nature. 1992 Mar 19; 356(6366):263-5.
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Bone R, Fujishige A, Kettner CA, Agard DA. Structural basis for broad specificity in alpha-lytic protease mutants. Biochemistry. 1991 Oct 29; 30(43):10388-98.
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Wilson C, Mace JE, Agard DA. Computational method for the design of enzymes with altered substrate specificity. J Mol Biol. 1991 Jul 20; 220(2):495-506.
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Wilson C, Wardell MR, Weisgraber KH, Mahley RW, Agard DA. Three-dimensional structure of the LDL receptor-binding domain of human apolipoprotein E. Science. 1991 Jun 28; 252(5014):1817-22.
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Hiraoka Y, Swedlow JR, Paddy MR, Agard DA, Sedat JW. Three-dimensional multiple-wavelength fluorescence microscopy for the structural analysis of biological phenomena. Semin Cell Biol. 1991 Jun; 2(3):153-65.
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Kam Z, Minden JS, Agard DA, Sedat JW, Leptin M. Drosophila gastrulation: analysis of cell shape changes in living embryos by three-dimensional fluorescence microscopy. Development. 1991 Jun; 112(2):365-70.
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Bone R, Sampson NS, Bartlett PA, Agard DA. Crystal structures of alpha-lytic protease complexes with irreversibly bound phosphonate esters. Biochemistry. 1991 Feb 26; 30(8):2263-72.
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Bone R, Agard DA. Mutational remodeling of enzyme specificity. Methods Enzymol. 1991; 202:643-71.
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Caldwell JW, Agard DA, Kollman PA. Free energy calculations on binding and catalysis by alpha-lytic protease: the role of substrate size in the P1 pocket. Proteins. 1991; 10(2):140-8.
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Hiraoka Y, Agard DA, Sedat JW. Temporal and spatial coordination of chromosome movement, spindle formation, and nuclear envelope breakdown during prometaphase in Drosophila melanogaster embryos. J Cell Biol. 1990 Dec; 111(6 Pt 2):2815-28.
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Paddy MR, Belmont AS, Saumweber H, 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 Jul 13; 62(1):89-106.
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Hiraoka Y, Sedat JW, Agard DA. Determination of three-dimensional imaging properties of a light microscope system. Partial confocal behavior in epifluorescence microscopy. Biophys J. 1990 Feb; 57(2):325-33.
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Hiraoka Y, Minden JS, Swedlow JR, Sedat JW, Agard DA. Focal points for chromosome condensation and decondensation revealed by three-dimensional in vivo time-lapse microscopy. Nature. 1989 Nov 16; 342(6247):293-6.
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Silen JL, Agard DA. The alpha-lytic protease pro-region does not require a physical linkage to activate the protease domain in vivo. Nature. 1989 Oct 5; 341(6241):462-4.
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Bone R, Frank D, Kettner CA, Agard DA. Structural analysis of specificity: alpha-lytic protease complexes with analogues of reaction intermediates. Biochemistry. 1989 Sep 19; 28(19):7600-9.
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Minden JS, Agard DA, Sedat JW, Alberts BM. Direct cell lineage analysis in Drosophila melanogaster by time-lapse, three-dimensional optical microscopy of living embryos. J Cell Biol. 1989 Aug; 109(2):505-16.
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Belmont AS, Braunfeld MB, Sedat JW, Agard DA. Large-scale chromatin structural domains within mitotic and interphase chromosomes in vivo and in vitro. Chromosoma. 1989 Aug; 98(2):129-43.
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Bone R, Silen JL, Agard DA. Structural plasticity broadens the specificity of an engineered protease. Nature. 1989 May 18; 339(6221):191-5.
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Silen JL, Frank D, Fujishige A, Bone R, Agard DA. Analysis of prepro-alpha-lytic protease expression in Escherichia coli reveals that the pro region is required for activity. J Bacteriol. 1989 Mar; 171(3):1320-5.
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Agard DA, Hiraoka Y, Shaw P, Sedat JW. Fluorescence microscopy in three dimensions. Methods Cell Biol. 1989; 30:353-77.
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Shaw PJ, Agard DA, Hiraoka Y, Sedat JW. Tilted view reconstruction in optical microscopy. Three-dimensional reconstruction of Drosophila melanogaster embryo nuclei. Biophys J. 1989 Jan; 55(1):101-10.
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Aikens RS, Agard DA, Sedat JW. Solid-state imagers for microscopy. Methods Cell Biol. 1989; 29:291-313.
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Kettner CA, Bone R, Agard DA, Bachovchin WW. Kinetic properties of the binding of alpha-lytic protease to peptide boronic acids. Biochemistry. 1988 Oct 4; 27(20):7682-8.
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Silen JL, McGrath CN, Smith KR, Agard DA. Molecular analysis of the gene encoding alpha-lytic protease: evidence for a preproenzyme. Gene. 1988 Sep 30; 69(2):237-44.
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Rykowski MC, Parmelee SJ, Agard DA, Sedat JW. Precise determination of the molecular limits of a polytene chromosome band: regulatory sequences for the Notch gene are in the interband. Cell. 1988 Aug 12; 54(4):461-72.
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Aggerbeck LP, Wetterau JR, Weisgraber KH, Mahley RW, Agard DA. Crystallization and preliminary X-ray diffraction studies on the amino-terminal (receptor-binding) domain of human apolipoprotein E3 from serum very low density lipoproteins. J Mol Biol. 1988 Jul 5; 202(1):179-81.
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Agard DA, Hiraoka Y, Sedat JW. Three-dimensional light microscopy of diploid Drosophila chromosomes. Cell Motil Cytoskeleton. 1988; 10(1-2):18-27.
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Bone R, Shenvi AB, Kettner CA, Agard DA. Serine protease mechanism: structure of an inhibitory complex of alpha-lytic protease and a tightly bound peptide boronic acid. Biochemistry. 1987 Dec 1; 26(24):7609-14.
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Hiraoka Y, Sedat JW, Agard DA. The use of a charge-coupled device for quantitative optical microscopy of biological structures. Science. 1987 Oct 2; 238(4823):36-41.
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Marsepoil T, Levesque P, Agard D, Dubeaux P, Blin F. [Hepatonephritis caused by piroxicam]. Gastroenterol Clin Biol. 1987 Oct; 11(10):712-3.
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Belmont AS, Sedat JW, Agard DA. A three-dimensional approach to mitotic chromosome structure: evidence for a complex hierarchical organization. J Cell Biol. 1987 Jul; 105(1):77-92.
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Thomas GJ, Agard DA. Quantitative analysis of nucleic acids, proteins, and viruses by Raman band deconvolution. Biophys J. 1984 Dec; 46(6):763-8.
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Libeskind M, Malbran J, Agard D, Pannetier C, Lecouillard C, Ivanovic A. [Anorectal manifestations of sexually transmissible diseases. Kaposi's sarcoma]. Ann Gastroenterol Hepatol (Paris). 1984 Oct-Nov; 20(5):265-70.
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Agard DA. Optical sectioning microscopy: cellular architecture in three dimensions. Annu Rev Biophys Bioeng. 1984; 13:191-219.
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Gruenbaum Y, Hochstrasser M, Mathog D, Saumweber H, Agard DA, Sedat JW. Spatial organization of the Drosophila nucleus: a three-dimensional cytogenetic study. J Cell Sci Suppl. 1984; 1:223-34.
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Agard DA. A least-squares method for determining structure factors in three-dimensional tilted-view reconstructions. J Mol Biol. 1983 Jul 15; 167(4):849-52.
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Agard DA, Sedat JW. Three-dimensional architecture of a polytene nucleus. Nature. 1983 Apr 21; 302(5910):676-81.
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Malbran J, Agard D, Libeskind M, Redelsperger PY, Lecouillard C, Pannetier C. [Syndrome of inappropriate antidiuretic hormone secretion. A report of two cases with hyponatremia and hypouricemia]. Sem Hop. 1982 Sep 23; 58(34):1925-7.
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Agard DA, Stroud RM. Linking regions between helices in bacteriorhodopsin revealed. Biophys J. 1982 Mar; 37(3):589-602.
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Steinberg RA, Agard DA. Studies on the phosphorylation and synthesis of type I regulatory subunit of cyclic AMP-dependent protein kinase in intact S49 mouse lymphoma cells. J Biol Chem. 1981 Nov 10; 256(21):11356-64.
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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. J Biol Chem. 1981 Nov 10; 256(21):10731-4.
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Agard DA, Steinberg RA, Stroud RM. Quantitative analysis of electrophoretograms: a mathematical approach to super-resolution. Anal Biochem. 1981 Mar 1; 111(2):257-68.
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Libeskind M, Lugagne F, Malbran J, Agard D, Redelsperger PY. [Hemorrhoids. Physiopathogenic concepts and approach to a rational treatment]. Gastroenterol Clin Biol. 1979 Oct; 3(10):705-8.
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Stroud RM, Agard DA. Structure determination of asymmetric membrane profiles using an iterative Fourier method. Biophys J. 1979 Mar; 25(3):495-512.
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Libeskind M, Malbran J, Lugagne F, Redelsperger PY, Bourgeois J, Agard D. [Gastrointestinal haemorrhage in the cirrhotic. The value of injectable posterior pituitary extract (author's transl)]. Nouv Presse Med. 1978 May 6; 7(18):1537-40.
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Libeskind M, Lugagne F, Malbran J, Agard D, Redelsperger PY. [The excision of villous tumours of the rectum via a trans-sphincterian anal approach (author's transl)]. Nouv Presse Med. 1978 Mar 18; 7(11):935-6.
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Libeskind M, Redelsperger PY, Lugagne F, Malbran J, Agard D. [Secondary melanomas of the liver. Appropos of 3 cases with hepatic symptomatology]. Med Chir Dig. 1978; 7(4):315-8.
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Ross MJ, Klymkowsky MW, Agard DA, Stroud RM. Structural studies of a membrane-bound acetylcholine receptor from Torpedo californica. J Mol Biol. 1977 Nov; 116(4):635-59.
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Libeskind M, Malbran J, Lugagne F, Agard D, Gatineau-Saillant C, Guyet-Rousset P. [Systemic amyloidosis and multiple myeloma. Report of a case with the association of light chain myeloma and gastric plasmacytosis (author's transl)]. Gastroenterol Clin Biol. 1977 Mar; 1(3):267-74.
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