N Grigorieff

Summary

Affiliation: Brandeis University
Country: USA

Publications

  1. pmc Direct detection pays off for electron cryo-microscopy
    Nikolaus Grigorieff
    is at the Department of Biochemistry and the Howard Hughes Medical Institute, Brandeis University, Waltham, Untied States
    elife 2:e00573. 2013
  2. ncbi request reprint FREALIGN: high-resolution refinement of single particle structures
    Nikolaus Grigorieff
    Howard Hughes Medical Institute, Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA 02454, USA
    J Struct Biol 157:117-25. 2007
  3. ncbi request reprint Structure of the respiratory NADH:ubiquinone oxidoreductase (complex I)
    N Grigorieff
    WM Keck Institute for Cellular Visualization, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, 415 South Street, Waltham, MA 02454 9110, USA
    Curr Opin Struct Biol 9:476-83. 1999
  4. ncbi request reprint Resolution measurement in structures derived from single particles
    N Grigorieff
    Howard Hughes Medical Institute, W M Keck Institute for Cellular Visualization, Rosenstiel Basic Medical Sciences Research Center, Department of Biochemistry, Brandeis University, 415 South Street, Waltham, MA 02454 9110, USA
    Acta Crystallogr D Biol Crystallogr 56:1270-7. 2000
  5. ncbi request reprint SIGNATURE: a single-particle selection system for molecular electron microscopy
    James Z Chen
    Howard Hughes Medical Institute, W M Keck Institute for Cellular Visualization, Department of Biochemistry, Brandeis University, Waltham, MA 22454 9110, USA
    J Struct Biol 157:168-73. 2007
  6. ncbi request reprint Three-dimensional structure of a voltage-gated potassium channel at 2.5 nm resolution
    O Sokolova
    W. M. Keck Institute for Cellular Visualization, Rosenstiel Basic Medical Research Center, Brandeis University, Waltham, MA 02454, USA
    Structure 9:215-20. 2001
  7. ncbi request reprint Ab initio resolution measurement for single particle structures
    Duncan Sousa
    Howard Hughes Medical Institute and Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA 02454, USA
    J Struct Biol 157:201-10. 2007
  8. ncbi request reprint Ewald sphere correction for single-particle electron microscopy
    Matthias Wolf
    Rosenstiel Basic Medical Sciences Research Center, Brandeis University, 415 South Street, Waltham, MA 02454, USA
    Ultramicroscopy 106:376-82. 2006
  9. ncbi request reprint Noise bias in the refinement of structures derived from single particles
    Alex Stewart
    Howard Hughes Medical Institute and Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, MS029, Brandeis University, 415 South Street, Waltham, MA 02454 9110, USA
    Ultramicroscopy 102:67-84. 2004
  10. ncbi request reprint Projection structure of a ClC-type chloride channel at 6.5 A resolution
    J A Mindell
    Department of Biochemistry, Howard Hughes Medical Institute, Basic Medical Science Research Center, Brandeis University, Waltham, Massachusetts 02454, USA
    Nature 409:219-23. 2001

Research Grants

  1. Three-dimensional structure of a CIC-type CI Channel
    Nikolaus Grigorieff; Fiscal Year: 2005

Collaborators

  • James Z Chen
  • MELISSA JURICA
  • J A Mindell
  • C Miller
  • AXEL BRUNGER
  • Olga Sokolova
  • Matthias Wolf
  • Christian M T Spahn
  • Yifan Cheng
  • D J DeRosier
  • Carsten Sachse
  • Alexander Fotin
  • Stephen C Harrison
  • Chen Xu
  • M Elizabeth Stroupe
  • Marcus Fändrich
  • Tomas Kirchhausen
  • Thomas Walz
  • Johannes Furst
  • Matthias Schmidt
  • Xing Zhang
  • Duncan Sousa
  • Bruce L Goode
  • Xiangyan Zeng
  • Avital A Rodal
  • Alex Stewart
  • Leo A Kim
  • Susan L McGovern
  • Walter Richter
  • Ethan Settembre
  • Richard Bellamy
  • Philip R Dormitzer
  • Henning Stahlberg
  • Pierre Damien Coureux
  • Simon Hippenmeyer
  • Karen M Daugherty
  • Howard Riezman
  • Deborah B Robins
  • Steve A N Goldstein
  • David Gutierrez
  • Shuhua Xu
  • Piotr Sliz
  • Margaret H Butler
  • R Bryan Sutton
  • Emilia Caselli
  • Brian K Shoichet

Detail Information

Publications30

  1. pmc Direct detection pays off for electron cryo-microscopy
    Nikolaus Grigorieff
    is at the Department of Biochemistry and the Howard Hughes Medical Institute, Brandeis University, Waltham, Untied States
    elife 2:e00573. 2013
    ..Improved electron detectors and image-processing techniques will allow the structures of macromolecules to be determined from tens of thousands of single-particle cryo-EM images, rather than the hundreds of thousands needed previously...
  2. ncbi request reprint FREALIGN: high-resolution refinement of single particle structures
    Nikolaus Grigorieff
    Howard Hughes Medical Institute, Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA 02454, USA
    J Struct Biol 157:117-25. 2007
    ..A general overview and details on how to use FREALIGN are provided. The program is free and available for download on the author's web page...
  3. ncbi request reprint Structure of the respiratory NADH:ubiquinone oxidoreductase (complex I)
    N Grigorieff
    WM Keck Institute for Cellular Visualization, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, 415 South Street, Waltham, MA 02454 9110, USA
    Curr Opin Struct Biol 9:476-83. 1999
    ....
  4. ncbi request reprint Resolution measurement in structures derived from single particles
    N Grigorieff
    Howard Hughes Medical Institute, W M Keck Institute for Cellular Visualization, Rosenstiel Basic Medical Sciences Research Center, Department of Biochemistry, Brandeis University, 415 South Street, Waltham, MA 02454 9110, USA
    Acta Crystallogr D Biol Crystallogr 56:1270-7. 2000
    ..It is concluded that the alignment of images is always accompanied by a correlation of the noise and that this correlation is indistinguishable from a correlation arising from a signal...
  5. ncbi request reprint SIGNATURE: a single-particle selection system for molecular electron microscopy
    James Z Chen
    Howard Hughes Medical Institute, W M Keck Institute for Cellular Visualization, Department of Biochemistry, Brandeis University, Waltham, MA 22454 9110, USA
    J Struct Biol 157:168-73. 2007
    ..The system design emphasizes both functionality and usability. This software has been released to the EM community and has been successfully applied to macromolecular structural analyses...
  6. ncbi request reprint Three-dimensional structure of a voltage-gated potassium channel at 2.5 nm resolution
    O Sokolova
    W. M. Keck Institute for Cellular Visualization, Rosenstiel Basic Medical Research Center, Brandeis University, Waltham, MA 02454, USA
    Structure 9:215-20. 2001
    ..A hanging gondola architecture has also been observed in the nicotinic acetylcholine receptor and the KcsA structure, suggesting that it is a common element of ion channels...
  7. ncbi request reprint Ab initio resolution measurement for single particle structures
    Duncan Sousa
    Howard Hughes Medical Institute and Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, MA 02454, USA
    J Struct Biol 157:201-10. 2007
    ..The new method has been conveniently implemented in a computer program called RMEASURE and is available to the microscopy community...
  8. ncbi request reprint Ewald sphere correction for single-particle electron microscopy
    Matthias Wolf
    Rosenstiel Basic Medical Sciences Research Center, Brandeis University, 415 South Street, Waltham, MA 02454, USA
    Ultramicroscopy 106:376-82. 2006
    ..Either method applied to synthetic data representing a large virus yields a higher resolution reconstruction than a method lacking this correction...
  9. ncbi request reprint Noise bias in the refinement of structures derived from single particles
    Alex Stewart
    Howard Hughes Medical Institute and Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, MS029, Brandeis University, 415 South Street, Waltham, MA 02454 9110, USA
    Ultramicroscopy 102:67-84. 2004
    ..The performance of the refinement algorithms is compared to that using a maximum likelihood approach. The weighted correlation coefficient was implemented in the computer program FREALIGN...
  10. ncbi request reprint Projection structure of a ClC-type chloride channel at 6.5 A resolution
    J A Mindell
    Department of Biochemistry, Howard Hughes Medical Institute, Basic Medical Science Research Center, Brandeis University, Waltham, Massachusetts 02454, USA
    Nature 409:219-23. 2001
    ..Cryo-electron microscopic analysis of these crystals yields a projection structure at 6.5 A resolution, which shows off-axis water-filled pores within the dimeric channel complex...
  11. ncbi request reprint Three-dimensional structure of C complex spliceosomes by electron microscopy
    Melissa S Jurica
    Howard Hughes Medical Institute, Rosenstiel Basic Medical Sciences Research Center, Department of Biochemistry, Brandeis University, 415 South Street, Waltham, Massachusetts 02454, USA
    Nat Struct Mol Biol 11:265-9. 2004
    ..The structure reveals a particle of dimensions 27 x 22 x 24 nm with a relatively open arrangement of three primary domains...
  12. pmc Paired beta-sheet structure of an Abeta(1-40) amyloid fibril revealed by electron microscopy
    Carsten Sachse
    Rosenstiel Basic Medical Sciences Research Center and Howard Hughes Medical Institute, Brandeis University, MS 029, Waltham, MA 02454 9110, USA
    Proc Natl Acad Sci U S A 105:7462-6. 2008
    ..However, unlike these previous structures, the beta-sheet pairing is observed within an amyloid fibril and includes significantly longer amino acid sequences...
  13. pmc Actin filament labels for localizing protein components in large complexes viewed by electron microscopy
    M Elizabeth Stroupe
    Howard Hughes Medical Institute, Brandeis University, Waltham, MA 02454, USA
    RNA 15:244-8. 2009
    ....
  14. pmc Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis
    Melissa S Jurica
    Howard Hughes Medical Institute, Department of Biochemistry, Brandeis University, Waltham, Massachusetts 02454, USA
    RNA 8:426-39. 2002
    ..These images represent an important first step toward attaining a comprehensive three-dimensional understanding of pre-mRNA splicing...
  15. pmc A dose-rate effect in single-particle electron microscopy
    James Z Chen
    Howard Hughes Medical Institute, Rosenstiel Center MS029, Brandeis University, 415 South Street, Waltham, MA 02545 9110, USA
    J Struct Biol 161:92-100. 2008
    ..The improvement in image quality, especially for multiple-exposure data collection, will help single-particle cryo-EM to reach higher resolution...
  16. pmc Electron cryomicroscopy structure of N-ethyl maleimide sensitive factor at 11 A resolution
    Johannes Furst
    Howard Hughes Medical Institute and Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, 415 South Street, Waltham, MA 02454, USA
    EMBO J 22:4365-74. 2003
    ..The density corresponding to alpha-SNAP and SNAREs is located on the 6-fold axis of the structure, near the NSF-N domains. The density of the N domain is weak, suggesting conformational variability in this part of NSF...
  17. pmc Near-atomic resolution using electron cryomicroscopy and single-particle reconstruction
    Xing Zhang
    Department of Biochemistry and Howard Hughes Medical Institute, Brandeis University, MS029, 415 South Street, Waltham, MA 02454, USA
    Proc Natl Acad Sci U S A 105:1867-72. 2008
    ..This potential has broad implications for structural cell biology...
  18. ncbi request reprint Conformational changes in the Arp2/3 complex leading to actin nucleation
    Avital A Rodal
    Department of Biology, Rosenstiel Basic Medical Sciences Research Center, Brandeis University, Waltham, Massachusetts 02454, USA
    Nat Struct Mol Biol 12:26-31. 2005
    ..We conclude that WASp stabilizes p35-dependent closure of the complex, holding Arp2 and Arp3 closer together to nucleate an actin filament...
  19. ncbi request reprint Low-resolution structure refinement in electron microscopy
    James Z Chen
    Department of Biochemistry, Rosenstiel Basic Medical Sciences Research Center, Howard Hughes Medical Institute, Brandeis University, 415 South Street, Waltham, MA 02454, USA
    J Struct Biol 144:144-51. 2003
    ....
  20. pmc Molecular interactions in rotavirus assembly and uncoating seen by high-resolution cryo-EM
    James Z Chen
    Rosenstiel Basic Medical Research Center, Brandeis University, Waltham, MA 02454, USA
    Proc Natl Acad Sci U S A 106:10644-8. 2009
    ..The Ca(2+)-stabilized VP7 intratrimer contact region, which presents important neutralizing epitopes, is unaltered upon capsid binding...
  21. pmc Comparison of Alzheimer Abeta(1-40) and Abeta(1-42) amyloid fibrils reveals similar protofilament structures
    Matthias Schmidt
    Rosenstiel Basic Medical Sciences Research Center and Howard Hughes Medical Institute, Brandeis University, MS 029, Waltham, MA 02454 9110, USA
    Proc Natl Acad Sci U S A 106:19813-8. 2009
    ..Based on this data and the previously studied Abeta(1-40) fibril structure, we describe a model for the arrangement of peptides within the Abeta(1-42) fibril...
  22. pmc High-resolution electron microscopy of helical specimens: a fresh look at tobacco mosaic virus
    Carsten Sachse
    Howard Hughes Medical Institute, Brandeis University MS029, 415 South Street, Waltham, MA 02454, USA
    J Mol Biol 371:812-35. 2007
    ..Overall, the observed differences suggest that the new model represents a different, more stable state of the virus, compared with the earlier published model...
  23. 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...
  24. ncbi request reprint Accurate determination of local defocus and specimen tilt in electron microscopy
    Joseph A Mindell
    Membrane Transport Biophysics Unit, National Institute of Neurological Disease and Stroke, National Institutes of Health, 36 Convent Drive, MSC4066, Bethesda, MD 20892 4066, USA
    J Struct Biol 142:334-47. 2003
    ..Nevertheless, the test results suggest that the fitting procedure is able to determine image defocus and tilt angle with errors of about 100 nm and 6 degrees, respectively...
  25. ncbi request reprint Single particle reconstructions of the transferrin-transferrin receptor complex obtained with different specimen preparation techniques
    Yifan Cheng
    Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
    J Mol Biol 355:1048-65. 2006
    ..Our results stress the need for critical evaluation of structures determined by single particle EM...
  26. ncbi request reprint A common mechanism underlying promiscuous inhibitors from virtual and high-throughput screening
    Susan L McGovern
    Department of Molecular Pharmacology and Biological Chemistry, Northwestern University, 303 East Chicago Avenue, Chicago, Illinois 60611, USA
    J Med Chem 45:1712-22. 2002
    ..Molecules acting via this mechanism may be widespread in drug discovery screening databases. Recognition of these compounds may improve screening results in many areas of pharmaceutical interest...
  27. pmc Structure determination of clathrin coats to subnanometer resolution by single particle cryo-electron microscopy
    Alexander Fotin
    Biophysics Graduate Program, Harvard Medical School, 240 Longwood Avenue, Boston, MA 02115, USA
    J Struct Biol 156:453-60. 2006
    ..These procedures should be generally applicable and may thus help determine the structures of other large protein assemblies to higher resolution by single particle cryo-electron microscopy...
  28. ncbi request reprint Structure of an auxilin-bound clathrin coat and its implications for the mechanism of uncoating
    Alexander Fotin
    Biophysics Graduate Program, Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA
    Nature 432:649-53. 2004
    ..Auxilin binding produces a local change in heavy-chain contacts, creating a detectable global distortion of the clathrin coat. We propose a mechanism by which local destabilization of the lattice promotes general uncoating...
  29. ncbi request reprint Molecular model for a complete clathrin lattice from electron cryomicroscopy
    Alexander Fotin
    Biophysics Graduate Program, Department of Cell Biology, Harvard Medical School, 240 Longwood Avenue, Boston, Massachusetts 02115, USA
    Nature 432:573-9. 2004
    ..These invariant local interactions appear to stabilize the lattice, allowing assembly and uncoating to be controlled by events at a few specific sites...
  30. ncbi request reprint Three-dimensional structure of I(to); Kv4.2-KChIP2 ion channels by electron microscopy at 21 Angstrom resolution
    Leo A Kim
    Department of Pediatrics, Boyer Center for Molecular Medicine, Yale University School of Medicine, 295 Congress Avenue, New Haven, CT 06535, USA
    Neuron 41:513-9. 2004
    ..To reach the pore from the cytosol, ions traverse one of four external fenestrae to enter the rotundal vestibule and then cross one of four internal windows in the gondola...

Research Grants4

  1. Three-dimensional structure of a CIC-type CI Channel
    Nikolaus Grigorieff; Fiscal Year: 2005
    ..The location of the labels will be determined using difference Fourier maps. The work will produce the first model of a C1C-type ion channel, key to a more thorough understanding of C1C channel function. ..