crystallography

Summary

Summary: The branch of science that deals with the geometric description of crystals and their internal arrangement. (McGraw-Hill Dictionary of Scientific and Technical Terms, 4th ed)

Top Publications

  1. ncbi Automated structure solution with autoSHARP
    Clemens Vonrhein
    Global Phasing Ltd, Sheraton House, Castle Park, Cambridge, UK
    Methods Mol Biol 364:215-30. 2007
  2. pmc Lipid-protein interactions in double-layered two-dimensional AQP0 crystals
    Tamir Gonen
    Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA
    Nature 438:633-8. 2005
  3. ncbi Structure of the alpha beta tubulin dimer by electron crystallography
    E Nogales
    Life Science Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
    Nature 391:199-203. 1998
  4. pmc In situ proteolysis for protein crystallization and structure determination
    Aiping Dong
    Structural Genomics Consortium, University of Toronto, 100 College Street, Toronto, Ontario M5G 1L5, Canada
    Nat Methods 4:1019-21. 2007
  5. ncbi IsoStar: a library of information about nonbonded interactions
    I J Bruno
    Cambridge Crystallographic Data Centre, Cambridge, U K
    J Comput Aided Mol Des 11:525-37. 1997
  6. pmc Micro-crystallography comes of age
    Janet L Smith
    Life Sciences Institute and Department of Biological Chemistry, University of Michigan, Ann Arbor, MI 48109, USA
    Curr Opin Struct Biol 22:602-12. 2012
  7. ncbi Surface of bacteriorhodopsin revealed by high-resolution electron crystallography
    Y Kimura
    Biomolecular Engineering Research Institute, Osaka, Japan
    Nature 389:206-11. 1997
  8. pmc Engineering a model protein cavity to catalyze the Kemp elimination
    Matthew Merski
    Department of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, CA 94158 2550, USA
    Proc Natl Acad Sci U S A 109:16179-83. 2012
  9. ncbi Structure of human RNase H1 complexed with an RNA/DNA hybrid: insight into HIV reverse transcription
    Marcin Nowotny
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Mol Cell 28:264-76. 2007
  10. ncbi Likelihood-enhanced fast translation functions
    Airlie J McCoy
    Department of Haematology, University of Cambridge, Cambridge Institute for Medical Research, Wellcome Trust MRC Building, Hills Road, Cambridge CB2 2XY, England
    Acta Crystallogr D Biol Crystallogr 61:458-64. 2005

Detail Information

Publications300 found, 100 shown here

  1. ncbi Automated structure solution with autoSHARP
    Clemens Vonrhein
    Global Phasing Ltd, Sheraton House, Castle Park, Cambridge, UK
    Methods Mol Biol 364:215-30. 2007
    ..We describe and discuss the preparation of the user input, the data flow through the pipeline, and the various results obtained throughout the procedure...
  2. pmc Lipid-protein interactions in double-layered two-dimensional AQP0 crystals
    Tamir Gonen
    Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA
    Nature 438:633-8. 2005
    ..Here we describe a 1.9 A resolution structure of junctional AQP0, determined by electron crystallography of double-layered two-dimensional crystals...
  3. ncbi Structure of the alpha beta tubulin dimer by electron crystallography
    E Nogales
    Life Science Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA
    Nature 391:199-203. 1998
    ..7-A density map obtained by electron crystallography of zinc-induced tubulin sheets...
  4. pmc In situ proteolysis for protein crystallization and structure determination
    Aiping Dong
    Structural Genomics Consortium, University of Toronto, 100 College Street, Toronto, Ontario M5G 1L5, Canada
    Nat Methods 4:1019-21. 2007
    ..This is a work in progress; so far we determined structures of 9 bacterial proteins and the human aminoimidazole ribonucleotide synthetase (AIRS) domain...
  5. ncbi IsoStar: a library of information about nonbonded interactions
    I J Bruno
    Cambridge Crystallographic Data Centre, Cambridge, U K
    J Comput Aided Mol Des 11:525-37. 1997
    ..Many unusual nonbonded interactions are to be found in the library and are of potential value for designing novel biologically active molecules...
  6. pmc Micro-crystallography comes of age
    Janet L Smith
    Life Sciences Institute and Department of Biological Chemistry, University of Michigan, Ann Arbor, MI 48109, USA
    Curr Opin Struct Biol 22:602-12. 2012
    The latest revolution in macromolecular crystallography was incited by the development of dedicated, user friendly, micro-crystallography beam lines...
  7. ncbi Surface of bacteriorhodopsin revealed by high-resolution electron crystallography
    Y Kimura
    Biomolecular Engineering Research Institute, Osaka, Japan
    Nature 389:206-11. 1997
    ..The negative charges produced by these aspartate residues is encircled by areas of positive charge that may facilitate accumulation and lateral movement of protons on this surface...
  8. pmc Engineering a model protein cavity to catalyze the Kemp elimination
    Matthew Merski
    Department of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, CA 94158 2550, USA
    Proc Natl Acad Sci U S A 109:16179-83. 2012
    ..This and related model cavities may provide templates for studying protein design principles in radically simplified environments...
  9. ncbi Structure of human RNase H1 complexed with an RNA/DNA hybrid: insight into HIV reverse transcription
    Marcin Nowotny
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    Mol Cell 28:264-76. 2007
    ..The region that accommodates this conformational change offers a target to develop HIV-specific inhibitors...
  10. ncbi Likelihood-enhanced fast translation functions
    Airlie J McCoy
    Department of Haematology, University of Cambridge, Cambridge Institute for Medical Research, Wellcome Trust MRC Building, Hills Road, Cambridge CB2 2XY, England
    Acta Crystallogr D Biol Crystallogr 61:458-64. 2005
    ..These likelihood-enhanced translation targets for molecular-replacement searches have been implemented in the program Phaser using the Computational Crystallography Toolbox (cctbx).
  11. pmc Class I tyrosyl-tRNA synthetase has a class II mode of cognate tRNA recognition
    Anna Yaremchuk
    European Molecular Biology Laboratory, Grenoble Outstation, c o ILL, 156X, F 38042 Grenoble Cedex 9, France
    EMBO J 21:3829-40. 2002
    ....
  12. ncbi 4D ultrafast electron diffraction, crystallography, and microscopy
    Ahmed H Zewail
    Laboratory for Molecular Sciences and Physical Biology Center for Ultrafast Science and Technology, California Institute of Technology, Pasadena, California 91125, USA
    Annu Rev Phys Chem 57:65-103. 2006
    In this review, we highlight the progress made in the development of 4D ultrafast electron diffraction (UED), crystallography (UEC), and microscopy (UEM) with a focus on concepts, methodologies, and prototypical applications...
  13. pmc Cooperative water filling of a nonpolar protein cavity observed by high-pressure crystallography and simulation
    Marcus D Collins
    Department of Physics, Cornell University, Ithaca, NY 14853, USA
    Proc Natl Acad Sci U S A 102:16668-71. 2005
    ..approximately 160-A(3), highly hydrophobic cavity created by mutation in T4 lysozyme by using high-pressure crystallography and molecular dynamics simulation...
  14. ncbi Electron crystallography for structural and functional studies of membrane proteins
    Yoshinori Fujiyoshi
    Structural Physiology, Department of Biophysics, Graduate School of Science, Kyoto University, Oiwake, Kitashirakawa, Sakyo ku, Kyoto 606 8502, Japan
    J Electron Microsc (Tokyo) 60:S149-59. 2011
    ..Electron crystallography is especially useful in studying the structure and function of membrane proteins...
  15. pmc A robust bulk-solvent correction and anisotropic scaling procedure
    Pavel V Afonine
    Lawrence Berkeley National Laboratory, One Cyclotron Road, Building 64R0121, Berkeley, CA 94720, USA
    Acta Crystallogr D Biol Crystallogr 61:850-5. 2005
    ..These algorithms are implemented in the CCTBX bulk-solvent correction and scaling module...
  16. pmc Advances in structural and functional analysis of membrane proteins by electron crystallography
    Goragot Wisedchaisri
    Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, VA 20147, USA
    Structure 19:1381-93. 2011
    Electron crystallography is a powerful technique for the study of membrane protein structure and function in the lipid environment...
  17. ncbi The three-dimensional structure of canine parvovirus and its functional implications
    J Tsao
    Department of Biological Sciences, Purdue University, West Lafayette, IN 47907
    Science 251:1456-64. 1991
    ..Eleven nucleotides are seen in each of 60 symmetry-related pockets on the interior surface of the capsid and together account for 13 percent of the genome...
  18. pmc Modulation of kinase-inhibitor interactions by auxiliary protein binding: crystallography studies on Aurora A interactions with VX-680 and with TPX2
    Baoguang Zhao
    Department of Computational and Structural Chemistry, GlaxoSmithKline, 709 Swedeland Road, King of Prussia, PA 19406, USA
    Protein Sci 17:1791-7. 2008
    ....
  19. ncbi The Protein Data Bank: a historical perspective
    Helen M Berman
    Rutgers, The State University of New Jersey, USA
    Acta Crystallogr A 64:88-95. 2008
    ..The interplay of science, technology and attitudes about data sharing have all played a role in the growth of this resource...
  20. pmc Images of paraffin monolayer crystals with perfect contrast: minimization of beam-induced specimen motion
    R M Glaeser
    Lawrence Berkeley National Laboratory, University of California, Berkeley, CA 94720, USA
    Ultramicroscopy 111:90-100. 2011
    ....
  21. ncbi Three-dimensional Fourier synthesis of horse oxyhaemoglobin at 2.8 A resolution: the atomic model
    M F Perutz
    Nature 219:131-9. 1968
  22. ncbi The crystal structure of human eukaryotic release factor eRF1--mechanism of stop codon recognition and peptidyl-tRNA hydrolysis
    H Song
    Section of Structural Biology, Institute of Cancer Research, London, United Kingdom
    Cell 100:311-21. 2000
    ..A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site...
  23. ncbi Temperature-induced A-B intersite charge transfer in an A-site-ordered LaCu(3)Fe(4)O(12) perovskite
    Y W Long
    Institute for Chemical Research, Kyoto University, Uji, Kyoto 611 0011, Japan
    Nature 458:60-3. 2009
    ..What is more interesting in relation to technological applications is that this above-room-temperature transition is associated with a large negative thermal expansion...
  24. ncbi Electron crystallography of organic materials
    Douglas L Dorset
    Advanced Characterization, Corporate Strategic Research, ExxonMobil Research and Engineering Co, Inc, 1545 Route 22 East, Annandale, NJ 08801, USA
    Ultramicroscopy 107:453-61. 2007
    The application of electron crystallography to the study of organic materials is reviewed, mainly in context of the author's own experience...
  25. ncbi Electron crystallography of bacteriorhodopsin with millisecond time resolution
    S Subramaniam
    Laboratory of Biochemistry, National Cancer Institute, Bethesda, Maryland 20892, USA
    J Struct Biol 128:19-25. 1999
    ..These difference maps report on the nature and extent of light-induced conformational changes in the photocycle and have provided incisive tools for understanding the molecular mechanism of proton transport by bacteriorhodopsin...
  26. ncbi Automation of sample mounting for macromolecular crystallography
    F Cipriani
    EMBL Grenoble, 6 rue Jules Horowitz, BP 181, Grenoble Cedex 9, France
    Acta Crystallogr D Biol Crystallogr 62:1251-9. 2006
    ..Tools for handling and transporting 50 samples in a dry shipping dewar have been developed. In addition to the SC3, the SPINE sample holder is currently compatible with a number of other robotic sample changers...
  27. ncbi Crystallography of gram-positive bacterial adhesins
    Vengadesan Krishnan
    School of Optometry and Center for Biophysical Sciences and Engineering, University of Alabama at Birmingham, Birmingham, AL 35294, USA
    Adv Exp Med Biol 715:175-95. 2011
    ..In the past decade, structural analysis by X-ray crystallography has enhanced our understanding of the interactions between MSCRAMMs and the host ECM by revealing several ..
  28. ncbi Correction of high-resolution data for curvature of the Ewald sphere
    D J DeRosier
    W M Keck Institute for Cellular Visualization, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA 02454, USA
    Ultramicroscopy 81:83-98. 2000
    ..The simplest of the methods is to take images with different amounts of defocus. For helical structures, however, only one image is needed...
  29. ncbi Symmetry: A guide to its application in 2D electron crystallography
    Michael J Landsberg
    Institute for Molecular Bioscience, Queensland Biosciences Precinct, The University of Queensland, Brisbane, QLD 4072, Australia
    J Struct Biol 160:332-43. 2007
    ..symmetry and space group symmetry in 3D, this review has been written from the perspective of 2D electron crystallography and deals specifically with symmetry operations and crystallographic space groups in 2D crystal projection ..
  30. pmc Electron crystallography--the waking beauty of structural biology
    Christopher R Pope
    Department of Molecular Biosciences, Northwestern University, 2205 Campus Drive, Evanston, IL 60208, USA
    Curr Opin Struct Biol 22:514-9. 2012
    Since its debut in the mid 1970s, electron crystallography has been a valuable alternative in the structure determination of biological macromolecules...
  31. ncbi Crystallography and the design of anti-AIDS drugs: conformational flexibility and positional adaptability are important in the design of non-nucleoside HIV-1 reverse transcriptase inhibitors
    Kalyan Das
    Department of Chemistry and Chemical Biology, Center for Advanced Biotechnology and Medicine, Rutgers University, 679 Hoes Lane West, Piscataway, NJ 08854, USA
    Prog Biophys Mol Biol 88:209-31. 2005
    ....
  32. ncbi Cryptic crystallography
    Gautam R Desiraju
    School of Chemistry, University of Hyderabad, Hyderabad 500 046, India
    Nat Mater 1:77-9. 2002
  33. ncbi Fine-tuning the stimulation of MLL1 methyltransferase activity by a histone H3-based peptide mimetic
    Vanja Avdic
    University of Ottawa, Ottawa Institute of Systems Biology, 451 Smyth Rd, Roger Guindon Hall, Ottawa, ON K1H 8M5, Canada
    FASEB J 25:960-7. 2011
    ..These results provide the structural basis to control WDR5-RbBP5-Ash2L-MLL1 activity and a tool to manipulate stem cell differentiation programs...
  34. ncbi Three-dimensional structure of Escherichia coli RNA polymerase holoenzyme determined by electron crystallography
    S A Darst
    Department of Cell Biology, Beckman Laboratories, Stanford, California 94305
    Nature 340:730-2. 1989
    ..In the light of functional similarities between these two enzymes, together with other evidence, this probably identifies the active-site region of RNA polymerase...
  35. pmc Protein crystallography for aspiring crystallographers or how to avoid pitfalls and traps in macromolecular structure determination
    Alexander Wlodawer
    Protein Structure Section, Macromolecular Crystallography Laboratory, NCI at Frederick, Frederick, MD, USA
    FEBS J 280:5705-36. 2013
    ..and 20 Nobel Prizes in chemistry or medicine have been awarded for discoveries based on macromolecular crystallography. New hardware and software tools have made crystallography appear to be an almost routine (but still far from ..
  36. ncbi Merging of image data in electron crystallography
    Marcel Arheit
    C CINA, Biozentrum, University Basel, Basel, Switzerland
    Methods Mol Biol 955:195-209. 2013
    Electron crystallography of membrane proteins uses cryo-transmission electron microscopy to record images and diffraction patterns of frozen-hydrated 2D crystals...
  37. pmc A helical processing pipeline for EM structure determination of membrane proteins
    Lauren S Fisher
    The National Resource for Automated Molecular Microscopy, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Methods 55:350-62. 2011
    Electron crystallography plays a key role in the structural biology of integral membrane proteins (IMPs) by offering one of the most direct means of providing insight into the functional state of these molecular machines in their lipid-..
  38. ncbi Crystallography: embracing conformational flexibility in proteins
    Matthias Buck
    Structure 11:735-6. 2003
  39. pmc Combining electron crystallography and X-ray crystallography to study the MlotiK1 cyclic nucleotide-regulated potassium channel
    Gina M Clayton
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA
    J Struct Biol 167:220-6. 2009
    ..Here we describe the application of both electron and X-ray crystallography to obtain high quality crystals...
  40. pmc Visualization of a water-selective pore by electron crystallography in vitreous ice
    G Ren
    Department of Cell Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 98:1398-403. 2001
    ..The apex of the curved pore is close to the locations of the in-plane pseudo-2-fold symmetry axis that relates the N- and C-terminal halves and the conserved, functionally important N76 and N192 residues...
  41. ncbi High throughput production of recombinant human proteins for crystallography
    Opher Gileadi
    The Structural Genomics Consortium, Botnar Research Centre, University of Oxford, Oxford, UK
    Methods Mol Biol 426:221-46. 2008
    ..6) Protein characterization and preparation for crystallography. The chapter also briefly presents alternative procedures, to be applied based on specific knowledge of ..
  42. pmc Translation calibration of inverse-kappa goniometers in macromolecular crystallography
    Sandor Brockhauser
    European Molecular Biology Laboratory, Grenoble, France
    Acta Crystallogr A 67:219-28. 2011
    Precise and convenient crystal reorientation is of experimental importance in macromolecular crystallography (MX)...
  43. pmc The role of crystallography in drug design
    Jeffrey R Deschamps
    Laboratory for the Structure of Matter, Naval Research Laboratory, Washington, DC 20375, USA
    AAPS J 7:E813-9. 2005
    ..It has been shown that the enantioselectivity of an enzyme is directly related to its chirality. X-ray crystallography is the only method for determining the "absolute" configuration of a molecule and is the most comprehensive ..
  44. pmc Raman crystallography of RNA
    Bo Gong
    Department of Biochemistry, Case Western Reserve University, Cleveland, OH 44106, USA
    Methods 49:101-11. 2009
    Raman crystallography is the application of Raman spectroscopy to single crystals...
  45. ncbi High-pressure protein crystallography and NMR to explore protein conformations
    Marcus D Collins
    Department of Physiology and Biophysics, University of Washington, Seattle, WA 98195 7290, USA
    Annu Rev Biophys 40:81-98. 2011
    High-pressure methods for solving protein structures by X-ray crystallography and NMR are maturing...
  46. ncbi Raman-assisted crystallography suggests a mechanism of X-ray-induced disulfide radical formation and reparation
    Philippe Carpentier
    Laboratoire de Cristallogenèse et Cristallographie des Protéines, IBS, Institut de Biologie Structurale Jean Pierre Ebel, CEA, CNRS, Universite Joseph Fourier, 41 rue Jules Horowitz, F 38027 Grenoble, France
    Structure 18:1410-9. 2010
    ..mechanisms of x-radiation damage in colored or redox proteins have often been investigated by combining X-ray crystallography with in crystallo-ultraviolet-visible spectroscopy...
  47. pmc Rationalisation of the differences between APOBEC3G structures from crystallography and NMR studies by molecular dynamics simulations
    Flavia Autore
    Randall Division of Cell and Molecular Biophysics, King s College London, London, United Kingdom
    PLoS ONE 5:e11515. 2010
    ..We discuss the implications of our analyses for the as yet unresolved structure of the full-length A3G protein and its biological functions with regard to hypermutation of DNA...
  48. pmc Stepwise analyses of metal ions in RNase H catalysis from substrate destabilization to product release
    Marcin Nowotny
    Laboratory of Molecular Biology, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892, USA
    EMBO J 25:1924-33. 2006
    ..Lastly, product release probably requires dissociation of metal ion A, which is inhibited by either high concentrations of divalent cations or mutation of an assisting protein residue...
  49. ncbi Crystallography: a down-to-Earth approach
    John R Helliwell
    Nature 448:658-9. 2007
  50. pmc Interactions between lipids and human anti-HIV antibody 4E10 can be reduced without ablating neutralizing activity
    Hengyu Xu
    Division of Basic Sciences, Fred Hutchinson Cancer Research Center, 1100 Fairview Ave N, Seattle, WA 98109, USA
    J Virol 84:1076-88. 2010
    ..These results show that 4E10 nonspecific membrane binding is separable from neutralization, which is achieved through specific peptide/lipid orientation changes...
  51. pmc Hierarchical docking of databases of multiple ligand conformations
    David M Lorber
    University of California San Francisco, Dept of Pharmaceutical Chemistry, 1700 4 Street, QB3 Building Room 508D, San Francisco, CA 94143 2550, USA
    Curr Top Med Chem 5:739-49. 2005
    ..Molecules with even millions of conformations can be docked in a few minutes on a single desktop computer...
  52. pmc Core domain interactions in full-length p53 in solution
    Dmitry B Veprintsev
    Medical Research Council Centre for Protein Engineering, Medical Research Council Centre, Hills Road, Cambridge CB2 2QH, United Kingdom
    Proc Natl Acad Sci U S A 103:2115-9. 2006
    ..Spectroscopic, biophysical, and mutational data conspired to give a picture of the p53 tetramer as a dimer of loosely tethered core dimers of appropriate symmetry to be poised to bind target DNA...
  53. ncbi The arrangement of first- and second-shell water molecules in trivalent aluminum complexes: results from density functional theory and structural crystallography
    Charles W Bock
    Philadelphia University, Henry Avenue and Schoolhouse Lane, Pennsylvania 19144, USA
    Inorg Chem 42:1538-48. 2003
    ..Interactions between the 12 second-shell water molecules and the trivalent aluminum ion in Al[H(2)O](6)(3+) do not appear to be sufficiently strong to orient the dipole moments of these second-shell water molecules toward the Al(3+) ion...
  54. ncbi Crystallography and electron microscopy of chaperone/usher pilus systems
    Sebastian Geibel
    Institute of Structural Molecular Biology, Birkbeck and University College London, London, UK
    Adv Exp Med Biol 715:159-74. 2011
    ..Here we review the structural biology of the chaperone-usher pathway that has helped to understand the mechanisms by which biogenesis of an important class of bacterial organelles occurs...
  55. pmc Antibody fragments as tools in crystallography
    L Griffin
    Department of Structural Biology, UCB, Slough, UK
    Clin Exp Immunol 165:285-91. 2011
    ..We also highlight a potential application for this technology, in which antibody-mediated structures may be used to inform the design of new chemical entities...
  56. ncbi The 1.7 A crystal structure of human cell cycle checkpoint kinase Chk1: implications for Chk1 regulation
    P Chen
    Agouron Pharmaceuticals, Inc San Diego, California 92121, USA
    Cell 100:681-92. 2000
    ..In addition, we found that the less conserved C-terminal region negatively impacts Chk1 kinase activity...
  57. ncbi Structural immunology and crystallography help immunologists see the immune system in action: how T and NK cells touch their ligands
    Yong Chen
    CAS Key Laboratory of Pathogenic Microbiology and Immunology CASPMI, Institute of Microbiology, Chinese Academy of Sciences, Beijing, People s Republic of China
    IUBMB Life 61:579-90. 2009
    ..Structural immunology indeed helps us see how T and NK cells "touch" their target cells in our immune system...
  58. pmc 2dx_merge: data management and merging for 2D crystal images
    Bryant Gipson
    Molecular and Cellular Biology, Briggs Hall, College of Biological Sciences, University of California at Davis, 1 Shields Avenue, Davis, CA 95616, USA
    J Struct Biol 160:375-84. 2007
    Electron crystallography of membrane proteins determines the structure of membrane-reconstituted and two-dimensionally (2D) crystallized membrane proteins by low-dose imaging with the transmission electron microscope, and computer image ..
  59. ncbi Structure of the water channel AqpZ from Escherichia coli revealed by electron crystallography
    P Ringler
    M E Müller Institute for Microscopy, University of Basel, Switzerland
    J Mol Biol 291:1181-90. 1999
    ..The 8 A projection map of the AqpZ tetramer in frozen hydrated samples is similar to that of AQP1, consistent with the high sequence homology between these proteins...
  60. ncbi Direct measurement of a pK(a) near neutrality for the catalytic cytosine in the genomic HDV ribozyme using Raman crystallography
    Bo Gong
    Department of Biochemistry, Case Western Reserve University, 10900 Euclid Avenue, Cleveland, Ohio 44106, USA
    J Am Chem Soc 129:13335-42. 2007
    ....
  61. pmc C-terminal domain of archaeal O-phosphoseryl-tRNA kinase displays large-scale motion to bind the 7-bp D-stem of archaeal tRNA(Sec)
    R Lynn Sherrer
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Nucleic Acids Res 39:1034-41. 2011
    ....
  62. pmc Ultrahigh-resolution crystallography and related electron density and electrostatic properties in proteins
    Claude Lecomte
    Laboratoire de Cristallographie et de Modélisation des Matériaux Minéraux et Biologiques LCM3B, CNRS ESA 7036, UHP Faculté des Sciences, BP 239, 54506 Vandoeuvre les Nancy Cedex, France
    J Synchrotron Radiat 15:202-3. 2008
    ..It is also possible to obtain a realistic valence electron density model, which is used in the calculation of the electrostatic potential and energetic properties of proteins...
  63. ncbi Crystallography and surface faceting of germanium nanowires
    Tobias Hanrath
    Department of Chemical Engineering, Texas Materials Institute, Center for Nano and Molecular Science and Technology, The University of Texas at Austin, Austin, TX 78712 1062, USA
    Small 1:717-21. 2005
  64. ncbi A monoclonal antibody for G protein-coupled receptor crystallography
    Peter W Day
    Department of Molecular and Cellular Physiology, Stanford University School of Medicine, 279 Campus Drive, Stanford, Palo Alto, California 94305, USA
    Nat Methods 4:927-9. 2007
    ..We describe the generation of a monoclonal antibody that recognizes the third intracellular loop (IL3) of the native human beta(2) adrenergic (beta(2)AR) receptor; this antibody was critical for acquiring diffraction-quality crystals...
  65. ncbi Crystallography of biological fluid as a method for evaluating its physicochemical characteristics
    A K Martusevich
    Kirov State Medical Academy
    Bull Exp Biol Med 143:385-8. 2007
    ..The informative value of differential analysis of biomaterial properties by means of modulating the environmental conditions is established...
  66. ncbi Databases in protein crystallography
    G J Kleywegt
    Department of Molecular Biology, Uppsala University, Biomedical Centre, Box 590, SE 751 24 Uppsala, Sweden
    Acta Crystallogr D Biol Crystallogr 54:1119-31. 1998
    ..Four application areas are discussed: model building, model refinement, model validation and model analysis...
  67. ncbi Crystal structure of the haemopexin-like C-terminal domain of gelatinase A
    A M Libson
    Nat Struct Biol 2:938-42. 1995
    ..The four blades are arranged around a channel-like opening in which Ca2+ and a Na-Cl+ ion pair are bound...
  68. ncbi Electron crystallography of biomolecules: mysterious membranes and missing cones
    Robert C Ford
    Manchester Interdisciplinary Biocentre, Faculty of Life Sciences, The University of Manchester, Manchester, M1 7DN, UK
    Trends Biochem Sci 33:38-43. 2008
    ..The requirement for detergent molecules to be present makes X-ray crystallography particularly difficult, coupled with the added problems of isolating sufficient (viable) protein samples at ..
  69. ncbi Trimeric structure of OprN and OprM efflux proteins from Pseudomonas aeruginosa, by 2D electron crystallography
    Olivier Lambert
    IECB, UMR CNRS 5471, Universite Bordeaux1, 2 rue Robert Escarpit, F 33607 PESSAC, France
    J Struct Biol 150:50-7. 2005
    ..of OprN and OprM into lipid bilayers and the determination of their 2D projected structure by cryo-electron crystallography, at 1 and 1.4 nm, respectively...
  70. ncbi Mechanism of positive allosteric modulators acting on AMPA receptors
    Rongsheng Jin
    Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York 10032, USA
    J Neurosci 25:9027-36. 2005
    ..We suggest that the potentiators slow deactivation by stabilizing the clamshell in its closed-cleft, glutamate-bound conformation...
  71. ncbi Structure of the exosporium and sublayers of spores of the Bacillus cereus family revealed by electron crystallography
    David A Ball
    Krebs Institute for Biomolecular Research, Department of Molecular Biology and Biotechnology, University of Sheffield, Firth Court, Western Bank, Sheffield S10 2TN, UK
    Mol Microbiol 68:947-58. 2008
    ..The array of crowns may also act as a matrix for the binding or adsorption of other proteins that have been identified in the exosporium such as GroEL, immune inhibitor A and arginase...
  72. ncbi Crystal structure of a deletion mutant of a tyrosyl-tRNA synthetase complexed with tyrosine
    P Brick
    J Mol Biol 194:287-97. 1987
    ..In contrast, the substrate carboxyl group makes no direct interactions with the enzyme. The results of both substrate inhibition studies and site-directed mutagenesis experiments have been examined in the light of the refined structure...
  73. ncbi Structural insights into P-glycoprotein (ABCB1) by small angle X-ray scattering and electron crystallography
    Christopher A McDevitt
    Nuffield Department of Clinical Laboratory Sciences, University of Oxford, John Radcliffe Hospital, Oxford, UK
    FEBS Lett 582:2950-6. 2008
    ..into this protein are described using a combination of small angle X-ray scattering data and cryo-electron crystallography data...
  74. ncbi Softer and soft X-rays in macromolecular crystallography
    Kristina Djinovic Carugo
    Structural Biology Laboratory, Sincrotrone Trieste in AREA Science Park, I 34102 Basovizza TS, Trieste, Italy
    J Synchrotron Radiat 12:410-9. 2005
    The utilization and the potential of softer and soft X-rays in macromolecular crystallography as well as the challenges associated with the corresponding diffraction experiments and their possible remedies are reviewed.
  75. ncbi Performance of a 2k CCD camera designed for electron crystallography at 400 kV
    K H Downing
    Life Science Division, Lawrence Berkeley National Laboratory, CA 94720, USA
    Ultramicroscopy 75:215-33. 1999
    ..While the quality of the images recorded on the CCD at the low exposures required in protein studies is not quite as good as that on film, electron diffraction data recorded on the CCD are superior to that on film...
  76. pmc Electron crystallography reveals plasticity within the drug binding site of the small multidrug transporter EmrE
    Vladimir M Korkhov
    MRC Laboratory of Molecular Biology, Hills Road, Cambridge, CB2 0QH, UK
    J Mol Biol 377:1094-103. 2008
    ..The regions in the EmrE dimer that are remodelled surround the drug binding site and include transmembrane domains from both monomers...
  77. ncbi Crystal structure of the TAO2 kinase domain: activation and specificity of a Ste20p MAP3K
    Tianjun Zhou
    Department of Biochemistry, The University of Texas Southwestern Medical Center at Dallas, 5323 Harry Hines Boulevard, Dallas, TX 75390, USA
    Structure 12:1891-900. 2004
    ..Finally, active TAO2 displays unusual interactions with ATP, involving, in part, a subgroup-specific C-terminal extension of TAO2. The observed interactions may be useful in making specific inhibitors of TAO kinases...
  78. ncbi NQ-Flipper: validation and correction of asparagine/glutamine amide rotamers in protein crystal structures
    Christian X Weichenberger
    Center of Applied Molecular Engineering, University of Salzburg, Jakob Haringerstrasse 5, 5020 Salzburg, Austria
    Bioinformatics 22:1397-8. 2006
    ..Here we present NQ-Flipper, a web service based on knowledge-based potentials of mean force to automatically detect and correct erroneous rotamers. We achieve excellent agreement with expert curated data...
  79. ncbi 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
    Cynthia N Fuhrmann
    Howard Hughes Medical Institute and Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, California 94143 2240, USA
    J Am Chem Soc 128:9086-102. 2006
    ..We provide experimental evidence that refutes use of either a short donor-acceptor distance or a downfield 1H chemical shift as sole indicators of a LBHB...
  80. ncbi The binding mode of epothilone A on alpha,beta-tubulin by electron crystallography
    James H Nettles
    Molecular and Systems Pharmacology, Emory University, Atlanta, GA 30322, USA
    Science 305:866-9. 2004
    ..A, bound to alpha,beta-tubulin in zinc-stabilized sheets, was determined by a combination of electron crystallography at 2.89 angstrom resolution and nuclear magnetic resonance-based conformational analysis...
  81. pmc Mail-in data collection at SPring-8 protein crystallography beamlines
    Nobuo Okazaki
    Japan Synchrotron Radiation Research Institute SPring 8, 1 1 1 Kouto, Sayo cho, Sayo gun, Hyogo 679 5198, Japan
    J Synchrotron Radiat 15:288-91. 2008
    ..This system is now in routine operation and is contributing to high-throughput beamline operation...
  82. pmc Automatic lattice determination for two-dimensional crystal images
    Xiangyan Zeng
    Molecular and Cellular Biology, Briggs Hall, College of Biological Sciences, University of California at Davis, 1 Shields Ave, Davis, CA 95616, USA
    J Struct Biol 160:353-61. 2007
    Electron crystallography determines the structure of membrane proteins and other periodic samples by recording either images or diffraction patterns...
  83. ncbi Nickel binding to NikA: an additional binding site reconciles spectroscopy, calorimetry and crystallography
    Christine Addy
    Graduate School of Integrated Science, Yokohama City University, Tsurumi, Suehiro 1 7 29, Yokohama 230 0045, Japan
    Acta Crystallogr D Biol Crystallogr 63:221-9. 2007
    ..This novel site immediately resolves the conflict between the crystal structures and other biophysical analyses. The physiological relevance of the two binding sites is discussed...
  84. pmc X-ray damage to the Mn4Ca complex in single crystals of photosystem II: a case study for metalloprotein crystallography
    Junko Yano
    Melvin Calvin Laboratory, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
    Proc Natl Acad Sci U S A 102:12047-52. 2005
    ..These studies reveal that the conditions used for structure determination by x-ray crystallography cause serious damage specifically to the metal-site structure...
  85. ncbi Electron crystallography of membrane proteins
    Hui Ting Chou
    Molecular and Cellular Biology, University of California, Davis, CA, USA
    Methods Mol Biol 369:331-43. 2007
    Electron crystallography studies the structure of two-dimensional crystals of membrane proteins or other crystalline arrays...
  86. ncbi The archaeal exosome core is a hexameric ring structure with three catalytic subunits
    Esben Lorentzen
    European Molecular Biology Laboratory, Heidelberg, Germany
    Nat Struct Mol Biol 12:575-81. 2005
    ..The high sequence similarity of this archaeal exosome to eukaryotic exosomes and its high structural similarity to the bacterial mRNA-degrading PNPase support a common basis for RNA-degrading machineries in all three domains of life...
  87. pmc Structure of lambda CII: implications for recognition of direct-repeat DNA by an unusual tetrameric organization
    Ajit B Datta
    Department of Biochemistry, Bose Institute, P1 12 CIT Scheme VIIM, Calcutta 700 054, India
    Proc Natl Acad Sci U S A 102:11242-7. 2005
    ..This structure provides a simple explanation for how a homotetrameric protein may recognize a direct-repeat DNA sequence rather than the inverted-repeat sequences of most prokaryotic activators...
  88. pmc A maximum likelihood approach to two-dimensional crystals
    Xiangyan Zeng
    Molecular and Cellular Biology, University of California at Davis, 1 Shields Avenue, Davis, CA 95616, USA
    J Struct Biol 160:362-74. 2007
    ..Compared with crystallographic processing, the newly developed software yields better resolution for 2D crystal images of lower crystal quality, and it performs equally well for well-ordered crystal images...
  89. pmc Electron crystallography of the scrapie prion protein complexed with heavy metals
    Holger Wille
    Institute for Neurodegenerative Diseases, University of California, San Francisco, CA 94143, USA Department of Neurology, University of California, San Francisco, CA 94143, USA
    Arch Biochem Biophys 467:239-48. 2007
    ..Electron crystallography of two-dimensional crystals of N-terminally truncated PrP(Sc) (PrP 27-30) and a miniprion (PrP(Sc)106) ..
  90. ncbi Self-consistent assignment of asparagine and glutamine amide rotamers in protein crystal structures
    Christian X Weichenberger
    Center of Applied Molecular Engineering, University of Salzburg, Jakob Haringerstrasse 5, 5020 Salzburg, Austria
    Structure 14:967-72. 2006
    ..The Asn/Gln rotamer assignment is available as a public web service intended to support protein structure refinement and modeling...
  91. ncbi Activation mechanism of the MAP kinase ERK2 by dual phosphorylation
    B J Canagarajah
    Department of Biochemistry, The University of Texas Southwestern Medical Center at Dallas, 75235 9050, USA
    Cell 90:859-69. 1997
    ..Conformational changes outside the lip provide loci at which the state of phosphorylation can be felt by other cellular components...
  92. ncbi Crystal structure of porcine ribonuclease inhibitor, a protein with leucine-rich repeats
    B Kobe
    Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas 75235 9050
    Nature 366:751-6. 1993
    ..A possible ribonuclease-binding region incorporates the surface formed by the parallel beta-sheet and the beta alpha loops...
  93. ncbi Probing substates in sperm whale myoglobin using high-pressure crystallography
    Paul Urayama
    Department of Physics, Cornell University, Ithaca, NY 14853, USA
    Structure 10:51-60. 2002
    ..Here, crystallography has been used to probe effects of pressure on sperm whale myoglobin structure...
  94. ncbi Metal-ligand geometry relevant to proteins and in proteins: sodium and potassium
    Marjorie M Harding
    Institute of Cell and Molecular Biology, University of Edinburgh, Michael Swann Building, Edinburgh EH9 3JR, Scotland, UK
    Acta Crystallogr D Biol Crystallogr 58:872-4. 2002
    ..Target M(+).O distances are proposed and the agreement with observed distances is summarized. The commonest interactions are with water molecules and the next commonest with main-chain carbonyl O atoms...
  95. ncbi Structural determinants of water permeation through aquaporin-1
    K Murata
    National Institute for Physiological Sciences, Okazaki, Japan
    Nature 407:599-605. 2000
    ..The atomic model provides a possible molecular explanation to a longstanding puzzle in physiology-how membranes can be freely permeable to water but impermeable to protons...
  96. ncbi Structural basis for activation of ARF GTPase: mechanisms of guanine nucleotide exchange and GTP-myristoyl switching
    J Goldberg
    Cellular Biochemistry and Biophysics Program Memorial Sloan Kettering Cancer Center, New York, New York 10021, USA
    Cell 95:237-48. 1998
    ..The transition controls the exposure of the myristoylated N terminus, explaining how ARF GTPases couple the GDP-GTP conformational switch to membrane binding...
  97. ncbi New applications of maximum likelihood and Bayesian statistics in macromolecular crystallography
    Airlie J McCoy
    University of Cambridge, Department of Haematology, Cambridge Institute for Medical Research, Wellcome Trust MRC Building, Hills Road, Cambridge CB2 2XY, UK
    Curr Opin Struct Biol 12:670-3. 2002
    ....
  98. pmc Are proteins well-packed?
    J Liang
    Department of Bioengineering, University of Illinois at Chicago, Chicago, Illinois 60607 7052, USA
    Biophys J 81:751-66. 2001
    ..And we find that the enthalpies of folding (per amino acid) are independent of the packing density of a protein, indicating that van der Waals interactions are not a dominant component of the folding forces...
  99. ncbi The structure of bacteriorhodopsin at 3.0 A resolution based on electron crystallography: implication of the charge distribution
    K Mitsuoka
    Department of Biophysics Faculty of Science, Kyoto University, Oiwake cho Kitashirakawa, Sakyo ku, Kyoto, 606 8502, Japan
    J Mol Biol 286:861-82. 1999
    Electron crystallography has the potential to visualise the charge status of atoms...
  100. ncbi Implementation of molecular replacement in AMoRe
    J Navaza
    CNRS GIF, LGV, 91198 Gif sur Yvette, France
    Acta Crystallogr D Biol Crystallogr 57:1367-72. 2001
    ....
  101. ncbi High-throughput crystallography for lead discovery in drug design
    Tom L Blundell
    Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge CB2 1GA, UK
    Nat Rev Drug Discov 1:45-54. 2002
    ..X-ray crystallography is the most widely used technique for protein structure determination, but technical challenges and time ..

Research Grants75

  1. Structure and function of urea transporters
    Ming Zhou; Fiscal Year: 2013
    ..We will determine if dvUT is a functional urea transporter, and if so, we will then use X-ray crystallography to identify urea binding sites...
  2. BIOSYNTHESIS OF TRACHEAL MUCOUS GLYCOPROTEINS
    Pi Wan Cheng; Fiscal Year: 2010
    ..We propose to: 1. Determine the active site of C2GnT-M by X-ray crystallography and then confirm the amino acids involved in catalysis by site-directed mutagenesis followed by measurement ..
  3. Structural and molecular basis of drug-induced IKACh reduction
    SAMI FOUAD NOUJAIM; Fiscal Year: 2012
    ..a multidisciplinary approach, involving fluorescence microscopy, chemiluminescence, NMR spectroscopy, X-ray crystallography and electrophysiology...
  4. Structural and molecular basis of drug-induced IKACh reduction
    SAMI FOUAD NOUJAIM; Fiscal Year: 2013
    ..a multidisciplinary approach, involving fluorescence microscopy, chemiluminescence, NMR spectroscopy, X-ray crystallography and electrophysiology...
  5. Interdisciplinary Research Training in Reproduction for Indian Fellows
    John C Herr; Fiscal Year: 2010
    ..Translational aims are fostered by faculty expertise in X-ray crystallography of reproductive proteins, mathematical modeling of ligand binding sites and organic synthesis of new small ..
  6. Systemic AA Amyloidosis Inhibitors
    ALAN D SNOW; Fiscal Year: 2010
    ..stereoisomer [(as determined by detailed analysis including HPLC/mass spec, 1H-NMR, 13C-NMR, DEPT, and x-ray crystallography (for PTI-19)]...
  7. MECHANISM-BASED DRUG SELECTION AND DESIGN: NUCLEOTIDE SA
    Buddy Ullman; Fiscal Year: 2003
    ..three-dimensional crystal structures for the UPRT, HGXPRT, and AK proteins determined by x-ray crystallography. (iv) Transgenic parasites...
  8. Regulation of NFkappaB activity by the Estrogen Receptor
    Kendall W Nettles; Fiscal Year: 2012
    ..NF-B pathway, we will characterize the structure of the receptor with pathway-selective ligands, using x-ray crystallography. We propose that pathway-selective ligands induce a unique conformation of the receptor that is distinct from ..
  9. CHEMISTRY AND BIOLOGY OF PLATINUM ANTICANCER DRUGS
    Stephen J Lippard; Fiscal Year: 2013
    ..Pt-DNA adducts and structurally characterized in solution by footprinting and in the solid state by X-ray crystallography. The major intrastrand 1,2-d(GpG) and 1,3-d(GpNpG) cross-links of cisplatin and oxaliplatin, as well as ..
  10. Ferritin: Protein/mRNA/DNA in Fe/O Regulation/Metabolism
    ELIZABETH C contact THEIL; Fiscal Year: 2010
    ..Biochemistry (binding kinetics/equilibria, UV-vis fluorescence MCD/CD, NMR spectroscopies, and X-ray crystallography), Molecular Biology (in vitro translation, mutagenesis, protein expression, EMSA, DNA-5mC analysis), and Cell ..
  11. FUNCTIONAL PROPERTIES OF HEMOGLOBINS AND MYOGLOBINS
    John S Olson; Fiscal Year: 2010
    ..1) Verifying the distal histidine (E7) pathway for ligand entry and exit by completing time-resolved X-ray crystallography and FTIR studies of key His(E7) and Phe(CD4) mutants of sperm whale Mb and then evaluating if the E7 pathway ..
  12. PRE- AND POSTGRADUATE TRAINING IN MOLECULAR HEMATOLOGY
    J Evan Sadler; Fiscal Year: 2013
    ..the Divisions of Hematology and Oncology, as well as extensive institutional resources for genome sequencing, crystallography, computational biology, animal studies, and patient-oriented clinical research...
  13. MECHANISMS OF FGF RECEPTOR REGULATION AND SIGNALING
    Moosa Mohammadi; Fiscal Year: 2013
    ..Recombinant protein expression and engineering, x-ray crystallography, Surface Plasmon Resonance (SPR) spectroscopy, isothermal titration calorimetry (ITC), steady-state kinetics ..
  14. Persisting Grand Mal and Myoclonic Seizures in JME including Veterans
    Antonio V Delgado-Escueta; Fiscal Year: 2013
    ..microtubule binding domain, a 'pilot experiment'will determine the structure of the protein by crystallography. (Aim 3e) Exploit the Drosophila model and gain functional information on the new putative JME genes being ..
  15. KINETICS OF DRUG MACROMOLECULE COMPLEX FORMATION
    PALMER WILLIAM TAYLOR; Fiscal Year: 2013
    ..Our structural and functional studies, using X ray crystallography and solution-based spectroscopic and spectrometric techniques, offer new avenues into understanding the roles ..
  16. Nitric Oxide Signaling with Heme Proteins
    William R Montfort; Fiscal Year: 2012
    ..Experiments involving X-ray crystallography, electron microscopy and mutagenesis are proposed...
  17. CELLULAR REGULATION OF CLATHRIN ASSEMBLY AND FUNCTION
    Frances M Brodsky; Fiscal Year: 2013
    ..The experimental approaches to these studies include protein crystallography and structure-based mutagenesis, RNA interference, membrane traffic and migration assays, and gene targeting ..
  18. STRUCTURE-BASED TUBERCULOSIS DRUG DESIGN TARGETED AT ACYL-COA CARBOXYLASE
    Shiou Chuan Tsai; Fiscal Year: 2010
    ..sequence-structure-function relationship, and biological roles of AccD4, AccD5 and AccD6, using X-ray crystallography, enzyme inhibition assays, and computer-assisted inhibitor design...
  19. Identifying Key Structural Elements in the Activation of the Arp2/3 Complex
    Patricia A Khuu; Fiscal Year: 2013
    ..Additionally, we will use x-ray crystallography to determine the structural basis for Arp2/3 activation by WASP family proteins for some mutants identified ..
  20. Biosynthetic Protein Models of Heme-copper Oxidases and Nitric Oxide Reductases
    Yi Lu; Fiscal Year: 2013
    ..were designed into Mb (called CuBMb and FeBMb, respectively), as demonstrated by both spectroscopy and X-ray crystallography, site-directed mutagenesis and expressed protein ligation (EPL) will be employed to introduce natural or ..
  21. Biosynthesis of Microbial Isoprenoids
    David E Cane; Fiscal Year: 2013
    ..basis for catalysis and product specificity using a combination of site-directed mutagenesis and protein crystallography. 2) A variety of catalytically novel oxygenases will be investigated that play key roles in the metabolic ..
  22. Thrombospondin 4 A1
    JOHN W LAWLER; Fiscal Year: 2010
    ..We have recently solved the structure of the signature domain of COMP by X-ray crystallography. Based on these data, we plan to determine the molecular basis for the interaction of COMP with collagens, ..
  23. X-ray Studies of Sugar-Modifying Enzymes
    Hazel Holden; Fiscal Year: 2013
    ..sugars are synthesized by an array of intriguing enzymes that will be investigated in this proposal by X-ray crystallography, site-directed mutagenesis experiments, and kinetic analyses...
  24. Metabolic Pathways and Defects in Fructose Metabolism
    DEAN TOLAN; Fiscal Year: 2009
    ..the second hypothesis, a high-resolution structure of AP-aldolase will be determined by macromolecular X-ray crystallography. Screening large libraries of small molecules (produced by combinatorial chemistry) using a thermal-stability ..
  25. Carbohydrate Regulation of Hepatic Gene Expression
    Kosaku Uyeda; Fiscal Year: 2010
    ..elucidate how Xu5P activates ChREBP and the bifunctional enzyme, Fru6P, 2kinase/Fru2,6 bisPase, using X-ray crystallography. PUBLIC HEALTH RELEVANCE: Obesity and its associated diseases, diabetes, hypertension, heart disease and some ..
  26. Structure and function of chloride channels and transporters
    Alessio Accardi; Fiscal Year: 2013
    ..This goal will be pursued through the combined use of X-ray crystallography, electrophysiological recordings, flux measurements and, for the first time for CLC proteins, direct ..
  27. Structure and function of Helicobacter pylori VacA
    Timothy L Cover; Fiscal Year: 2013
    ..Methods will include cryo-electron microscopy, crystallography, molecular genetics, and analysis of gene trap and shRNA libraries...
  28. The role fo the TPP1 peotein in telomerase function and cancer cell survival
    Jayakrishnan Nandakumar; Fiscal Year: 2013
    ..As a technician I studied protein folding, then, as a graduate student I employed biochemistry and x-ray crystallography to study RNA/DNA repair, and now, working as a post-doc with Dr...
  29. Molecular mechanisms of bacterial homologs of neurotransmitter:sodium symporters
    Jonathan A Javitch; Fiscal Year: 2013
    ..with investigators whose expertise in computational modeling (Harel Weinstein), membrane protein crystallography (Poul Nissen), and single-molecule fluorescence spectroscopy (Scott Blanchard) enables the combined ..
  30. Ligand Interaction of Glucagon Receptor by Structural and Functional Analyses
    FAI YIU SIU; Fiscal Year: 2012
    ..determining the structure of the full-length class-B human glucagon receptor bound to its ligand using X-ray crystallography, and studying the effects of various amino acid residues in the receptor on ligand binding and induced ..
  31. Structure and Mechanism of SAM-responsive Riboswitches
    Robert T Batey; Fiscal Year: 2013
    ..dictate the regulatory response? To address these questions, a combination of approaches including X-ray crystallography, small-angle X-ray scattering (SAXS), and various biochemical and molecular biological approaches will be ..
  32. Structure and Function of Enzymes in Fatty Acid Oxidation
    JUNG JA P KIM; Fiscal Year: 2013
    ..Specific Aims are: 1) Structural studies of human TFP by X-ray crystallography to understand how its three distinct active sites communicate with each other;2) Studies of VLCAD, including ..
  33. Nonheme Diiron Centers and the Biological Oxidation of Hydrocarbons
    Stephen J Lippard; Fiscal Year: 2013
    ..Both proteins and synthetic models will be studied by X-ray crystallography to establish geometry...
  34. Kynurenic Acid Synthesis in Mouse Brain
    Jianyong Li; Fiscal Year: 2010
    ..as the model species, and (3) to establish the structure/function relationship of KATs through macromolecular crystallography. Laboratory mice are widely considered the model species for studying human diseases because mice and humans ..
  35. Regulation of Carbohydrate Metabolism and Lipogenesis
    Kosaku Uyeda; Fiscal Year: 2013
    ..X-ray crystallography will be used to investigate the mechanisms of metabolite regulation of ChREBP binding to 14-3-3 and importin [..
  36. Challenges in beta-Lactamase Mediated Resistance
    Robert A Bonomo; Fiscal Year: 2013
    ..We will use information obtained from susceptibility tests, kinetics, and X-ray crystallography to inform the design of novel functionalities that improve inhibitor affinity and specificity. 2...
  37. Problems in Membrane Protein Crystallography: Hetero-Oligomeric Cytochrome b6f
    William A Cramer; Fiscal Year: 2012
    ..majority of the relatively few hetero-oligomeric integral membrane proteins that have been solved by X-ray crystallography to a resolution d 3.0 E...
  38. Separation-of-function Mutants to Study the Biological Significance of Telomerase
    Jayakrishnan Nandakumar; Fiscal Year: 2012
    ..As a technician I studied protein folding, then, as a graduate student I employed biochemistry and x-ray crystallography to study RNA/DNA repair, and now, working as a post-doc with Dr...
  39. Structure-Based Design of Novel HNF4a Antagonists to Treat Metabolic Syndrome
    Arnold T Hagler; Fiscal Year: 2010
    ..To this end we will integrate in silico induced-fit docking with cell based transcription assays, X-ray crystallography, and molecular dynamics free energy pertubation and replica exchange simulations to find confirmed hits (X-..
  40. The influenza A virus nucleoprotein: structure and function
    Yizhi Jane Tao; Fiscal Year: 2012
    ..site-directed mutagenesis and fluorescence anisotropy;(3) solve the structure of the NP:RNA complex by X-ray crystallography and cryo-EM reconstruction to obtain an accurate atomic model for the structure of the RNP;(4) elucidate the ..
  41. MOLECULAR BASIS OF ALPHAVIRUS ASSEMBLY
    Richard J Kuhn; Fiscal Year: 2013
    ..Michael Rossmann that have finally revealed the structure of the Sindbis virus E1-E2 spike using X-ray crystallography. The alphaviruses represent an excellent model system to understand how enveloped icosahedral viruses ..
  42. Heme trafficking and its impact on systemic iron homeostasis
    Janis L Abkowitz; Fiscal Year: 2010
    ..proteins, such as hemopexin and albumin, using mutagenesis analyses, Xenopus oocytes studies, and electron crystallography. We will determine how iron regulates the intercellular localization of FLVCR to aid systemic iron balance...
  43. Heme trafficking and its impact on systemic iron homeostasis
    Janis L Abkowitz; Fiscal Year: 2013
    ..proteins, such as hemopexin and albumin, using mutagenesis analyses, Xenopus oocytes studies, and electron crystallography. We will determine how iron regulates the intercellular localization of FLVCR to aid systemic iron balance...
  44. Structure and Specificity in Metal Ion Homeostasis
    Amy C Rosenzweig; Fiscal Year: 2013
    ..metal binding studies, in vitro activity assays, in vivo assays, site-directed mutagenesis, spectroscopy, and crystallography. The first two specific aims focus on characterization of Cu+ transporting CopA P1B-1-ATPases, the soluble ..
  45. Mechanisms and regulation of serine resolvases
    Phoebe A Rice; Fiscal Year: 2012
    ..The approach taken in this study is a combination of in vitro biochemical studies and x-ray crystallography, in close collaboration with a group that has expertise with genetics, biochemistry, and DNA topology...
  46. HEMOPROTEIN OXIDATION AND HEME CATABOLISM
    Paul R Ortiz de Montellano; Fiscal Year: 2013
    ..In previous work, we have used crystallography and NMR to elucidate the structure and mechanism of HO-1, one of the two active forms of the enzyme in humans...
  47. Origins of Diversity at Human Classical MHC Class I Genes
    PETER R PARHAM; Fiscal Year: 2013
    ..In Aim 1 crystallography of Patr-AL will be undertaken to determine if this common specificity is the result of convergent or ..
  48. Pathogen-Specific Regulation of Protein Assembly
    ALLEN BERNARD REITZ; Fiscal Year: 2010
    ..Phase I grant to use the information we have developed so far, taken together with new insight from X-ray crystallography, if any, and further screening as it emerges, to prepare compound libraries that provide leads and ..
  49. Recombinant Antibodies from the Sea Lamprey
    ZEEV contact PANCER; Fiscal Year: 2010
    ..biochemical and structural properties of VLR-interactions using surface plasmon resonance combined with X-ray crystallography. 3. Engineer high affinity ligand-binding VLRs by random or targeted mutagenesis...
  50. Molecular Basis of Bacterial Quorum Sensing Gene Regulation
    MAIR E CHURCHILL; Fiscal Year: 2010
    ..aeruginosa. In the three Aims of this proposal, X-ray crystallography, biophysical, biochemical, and microbiology methods will be used to obtain new structural information about ..
  51. Protein Structure/Function by NMR, Crystallography and Computational Chemistry
    Eric Oldfield; Fiscal Year: 2012
    ....
  52. New mechanism and regulation of intracellular heme delivery in mammals
    Dennis J Stuehr; Fiscal Year: 2013
    ..in an in-vitro reconstitution system, and (iii) Solving the structure of the GAPDH-heme complex by protein crystallography and spectroscopy...
  53. Investigation of the structure and function of urea amidolyase
    MARTIN RAOUL ST. MAURICE; Fiscal Year: 2012
    ..This project will use protein X-ray crystallography to determine the molecular structure of the enzyme active sites of UAL and will combine crystallography with ..
  54. Structural Immunology of CD1 and CD1-TCR Complexes
    Dirk M Zajonc; Fiscal Year: 2013
    ..of CD1 antigen receptors in complex with different lipids and cognate T cell receptors (TCR's) by x-ray crystallography. We specifically address the following specific aims: 1) What are the biochemical and functional properties ..
  55. Structural Basis for Synergistic Gene Expression by Runx1 and Ets1 Proteins
    Tahir H Tahirov; Fiscal Year: 2012
    ..X-ray crystallography and a combination of methods (Electrophoretic Mobility Shift Assays, Surface Plasmon Resonance and Atomic ..
  56. Plasmid-Mediated Quinolone Resistance
    George A Jacoby; Fiscal Year: 2013
    ..Under Specific Aim 3, we propose to explore Qnr/gyrase interaction as revealed by isothermal titration calorimetry or surface plasmon resonance and by x- ray crystallography.
  57. Mechanisms of Viral DNA Packaging
    CARLOS JOSE BUSTAMANTE; Fiscal Year: 2013
    ..Results of biophysical measurements will be integrated with structure determination by x-ray crystallography and cryo-electron microscopy (from established collaborations) and used to guide the development of models of ..
  58. Facilitating large scale biomass generation: acquisition of an automated 100 L fe
    Roger D Kornberg; Fiscal Year: 2010
    ..several decades on large scale fermentation, to obtain the quantities of proteins needed for biochemistry and crystallography. It is now proposed to bring the entire effort to fruition, and a modern fermentor is needed for the purpose...
  59. The function(s) of serpin-2 in mosquito immunity and physiology
    Kristin Michel; Fiscal Year: 2013
    ..molecular interactions between SRPN2 and one of its target proteinases, CLIPB9, will be identified by protein crystallography and mutational analysis...
  60. Characterization of CHD family chromodomains Implicated in Epigenetic Signaling
    Kimberly R Wiggins; Fiscal Year: 2010
    ..interaction through structure determination with the use of nuclear magnetic resonance spectroscopy and x-ray crystallography. Our long term goal is to characterize the chromodomains of this family by determining their roles in ..
  61. Structural Genomics of Orphan Nuclear Receptors
    H Eric Xu; Fiscal Year: 2013
    ..In this renewed application, the plan is to use X-ray crystallography in combination with biochemical and functional assays to test this hypothesis...
  62. 3D Structure and Function of CRAC Channels
    STEPHEN BARSTOW LONG; Fiscal Year: 2013
    ..This study proposes to use X-ray crystallography to determine 3- dimensional structures of CRAC channels...
  63. Bright and Fast Sensor for Time Resolved X-Ray Diffraction Studies
    VIVEK V NAGARKAR; Fiscal Year: 2010
    ..studies, essential for understanding dynamic biological phenomena and recovering phase information in X-ray crystallography. To make the most effective use of these advanced synchrotron sources for important protein studies, however, ..
  64. X RAY STRUCTURAL STUDIES OF LACTOFERRIN
    Edward Baker; Fiscal Year: 2000
    ..The research will use the complementary techniques of x-ray crystallography and site-directed mutagenesis to define the factors that determine metal and anion binding affinity and ..
  65. HIGH PERFORMANCE NEUTRON DETECTOR FOR PROTEIN CRYSTALLOGRAPHY
    JAROSLAW GLODO; Fiscal Year: 2007
    ..In biomedical and pharmaceutical research, neutrons are used in macromolecular crystallography to investigate the structure of molecules and proteins, which consist mostly of light elements...
  66. Structural Contexts and Functional Consequences of Protein S-nitrosylation
    Eric R Schreiter; Fiscal Year: 2010
    ..We have previously demonstrated using X-ray crystallography that S- nitrosylation of myoglobin induces a conformational change in that protein...
  67. Development of ZnTe Powder Phosphor for Protein Crystallographic X-ray Detectors
    CHRISTOPHER SUMMERS; Fiscal Year: 2009
    ..Simply stated: ZnTe:O will have a major impact on protein crystallography. Our project will be most valuable to this major field, which is extremely important to NIH...
  68. Three-Dimensional Imaging of Whole Cells by Using X-ray Diffraction Microscopy
    Jianwei Miao; Fiscal Year: 2010
    DESCRIPTION (provided by applicant): X-ray protein crystallography is currently the primary methodology used for determining the 3D structure of protein molecules at near-atomic or atomic resolution...
  69. Bright and Fast Sensor for Time Resolved X-Ray Diffraction Studies
    Vivek Nagarkar; Fiscal Year: 2007
    ..diffraction studies for understanding dynamic biological phenomena and recovering phase information in X-ray crystallography. To make the most effective use of these advanced synchrotron sources for important protein studies, however, ..
  70. OSU Crystallography Facility: Acquisition of Crystallization Robot
    Michael K Chan; Fiscal Year: 2010
    ..In the past ten years investigators at Ohio State University have used the powerful technique of X-ray crystallography for a wide variety of high-impact NIH-funded research, including the discovery of the 22nd genetically ..
  71. 2007 Electron Distribution & Chemical Bonding Gordon Research Conference
    Carlo Gatti; Fiscal Year: 2007
    ..A crystallography without crystals...
  72. A shared macromolecular X-ray diffraction system in Rochester
    Joseph E Wedekind; Fiscal Year: 2010
    DESCRIPTION (provided by applicant): The University of Rochester Medical Center has targeted X-ray crystallography as an area for strategic development due to its potential for high impact on existing NIH-funded research programs and ..
  73. Nanocrystalline Phosphors for Medical Imaging Applications
    CHRISTOPHER SUMMERS; Fiscal Year: 2009
    ..phosphor screens will be developed based on nanocrystal quantum dots (QDs), with applications to protein crystallography, digital radiography and mammography applications, as well as a host of other important imaging and lighting ..
  74. A Universal Micromanipulation Robot for Crystallography
    Robert Viola; Fiscal Year: 2009
    Process automation has become an essential element of all modern crystallography facilities...
  75. CRYSTALLOGRAPHY OF ACTIN AND RELATED PROTEINS
    CLARENCE SCHUTT; Fiscal Year: 2001
    ..The purification of short oligomers of filamentous actin suitable for x-ray crystallography will set the stage for a structure determination of the most physiologically relevant form of actin...