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SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields.
- J. Frank, M. Radermacher, +4 authors A. Leith
- Computer Science, MedicineJournal of structural biology
Novel features are a suite of operations relating to the determination, modeling, and correction of the contrast transfer function and the availability of the entire documentation in hypertext format.
Three-Dimensional Electron Microscopy of Macromolecular Assemblies
- J. Frank
- Materials Science
- 2 March 2006
Electron microscopy of macromolecular assemblies two-dimensional averaging techniques multivariate statistical analysis and classification of images three-dimensional reconstruction interpretation of…
Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics.
- Leonardo G. Trabuco, E. Villa, K. Mitra, J. Frank, K. Schulten
- Chemistry, MedicineStructure
- 7 May 2008
A novel method to flexibly fit atomic structures into electron microscopy (EM) maps using molecular dynamics simulations is presented. The simulations incorporate the EM data as an external potential…
Three-Dimensional Electron Microscopy of Macromolecular Assemblies: Visualization of Biological Molecules in Their Native State
- J. Frank
- 26 January 1996
Cryoelectron microscopy of biological molecules is among the hottest growth areas in biophysics and structural biology at present, and Frank is arguably the most distinguished practitioner of this…
Structure of the 80S Ribosome from Saccharomyces cerevisiae—tRNA-Ribosome and Subunit-Subunit Interactions
This analysis presents an exhaustive inventory of an eukaryotic ribosome at the molecular level, with mainly rRNA contributing to its molecular environment.
SPIDER image processing for single-particle reconstruction of biological macromolecules from electron micrographs
This protocol describes the reconstruction of biological molecules from the electron micrographs of single particles using the image-processing software SPIDER, and a method to look for homogeneous subsets when multiple known conformations of the molecule may coexist.
Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation
An 11.7‐Å‐resolution cryo‐EM map of the yeast 80S·eEF2 complex in the presence of the antibiotic sordarin was interpreted in molecular terms, revealing large conformational changes within eEF2 and…
The Cryo-EM Structure of a Translation Initiation Complex from Escherichia coli
A cryo-EM reconstruction of the IC is obtained showing IF2*GDPNP at the intersubunit cleft of the 70S ribosome, and IF2 here adopts a conformation radically different from that seen in the recent crystal structure of IF2.
Structure of the signal recognition particle interacting with the elongation-arrested ribosome
The model shows how the S domain of SRP contacts the large ribosomal subunit at the nascent chain exit site to bind the signal sequence, and that the Alu domain reaches into the elongation-factor-binding site of the ribosome, explaining its elongation arrest activity.
Architecture of the Protein-Conducting Channel Associated with the Translating 80S Ribosome
A binary model of cotranslational translocation entailing only two basic functional states of the translating ribosome-channel complex is proposed.