Research Topics
Genomes and Genes | N GrigorieffSummaryAffiliation: Brandeis University Country: USA Publications
Research Grants
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Publications
Direct detection pays off for electron cryo-microscopyNikolaus 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...
FREALIGN: high-resolution refinement of single particle structuresNikolaus 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...- 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.... - Resolution measurement in structures derived from single particlesN 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... - SIGNATURE: a single-particle selection system for molecular electron microscopyJames 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... - Three-dimensional structure of a voltage-gated potassium channel at 2.5 nm resolutionO 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... - Ab initio resolution measurement for single particle structuresDuncan 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... - Ewald sphere correction for single-particle electron microscopyMatthias 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... - Noise bias in the refinement of structures derived from single particlesAlex 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... - Projection structure of a ClC-type chloride channel at 6.5 A resolutionJ 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... - Three-dimensional structure of C complex spliceosomes by electron microscopyMelissa 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... - Paired beta-sheet structure of an Abeta(1-40) amyloid fibril revealed by electron microscopyCarsten 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... - Actin filament labels for localizing protein components in large complexes viewed by electron microscopyM Elizabeth Stroupe
Howard Hughes Medical Institute, Brandeis University, Waltham, MA 02454, USA
RNA 15:244-8. 2009.... - Purification and characterization of native spliceosomes suitable for three-dimensional structural analysisMelissa 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... - A dose-rate effect in single-particle electron microscopyJames 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... - Electron cryomicroscopy structure of N-ethyl maleimide sensitive factor at 11 A resolutionJohannes 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... - Near-atomic resolution using electron cryomicroscopy and single-particle reconstructionXing 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... - Conformational changes in the Arp2/3 complex leading to actin nucleationAvital 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... - Low-resolution structure refinement in electron microscopyJames 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.... - Molecular interactions in rotavirus assembly and uncoating seen by high-resolution cryo-EMJames 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... - Comparison of Alzheimer Abeta(1-40) and Abeta(1-42) amyloid fibrils reveals similar protofilament structuresMatthias 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... - High-resolution electron microscopy of helical specimens: a fresh look at tobacco mosaic virusCarsten 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... - A maximum likelihood approach to two-dimensional crystalsXiangyan 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... - Accurate determination of local defocus and specimen tilt in electron microscopyJoseph 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... - Single particle reconstructions of the transferrin-transferrin receptor complex obtained with different specimen preparation techniquesYifan 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... - A common mechanism underlying promiscuous inhibitors from virtual and high-throughput screeningSusan 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... - Structure determination of clathrin coats to subnanometer resolution by single particle cryo-electron microscopyAlexander 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... - Structure of an auxilin-bound clathrin coat and its implications for the mechanism of uncoatingAlexander 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... - Molecular model for a complete clathrin lattice from electron cryomicroscopyAlexander 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... - Three-dimensional structure of I(to); Kv4.2-KChIP2 ion channels by electron microscopy at 21 Angstrom resolutionLeo 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 Grants
- Three-dimensional structure of a CIC-type CI ChannelNikolaus 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. ..