Published in Nat Methods on December 10, 2006
RELION: implementation of a Bayesian approach to cryo-EM structure determination. J Struct Biol (2012) 10.13
Image processing for electron microscopy single-particle analysis using XMIPP. Nat Protoc (2008) 4.90
SPIDER image processing for single-particle reconstruction of biological macromolecules from electron micrographs. Nat Protoc (2008) 4.60
Ribosome structures to near-atomic resolution from thirty thousand cryo-EM particles. Elife (2013) 4.42
Spontaneous intersubunit rotation in single ribosomes. Mol Cell (2008) 3.77
Head swivel on the ribosome facilitates translocation by means of intra-subunit tRNA hybrid sites. Nature (2010) 2.85
Movies of ice-embedded particles enhance resolution in electron cryo-microscopy. Structure (2012) 2.80
Structure of ratcheted ribosomes with tRNAs in hybrid states. Proc Natl Acad Sci U S A (2008) 2.77
Classification and 3D averaging with missing wedge correction in biological electron tomography. J Struct Biol (2008) 2.19
Structural insights into RNA processing by the human RISC-loading complex. Nat Struct Mol Biol (2009) 2.19
Structure of the 26S proteasome from Schizosaccharomyces pombe at subnanometer resolution. Proc Natl Acad Sci U S A (2010) 2.05
Preparation of macromolecular complexes for cryo-electron microscopy. Nat Protoc (2007) 1.90
Structure and dynamics of a processive Brownian motor: the translating ribosome. Annu Rev Biochem (2010) 1.84
Determination of signal-to-noise ratios and spectral SNRs in cryo-EM low-dose imaging of molecules. J Struct Biol (2009) 1.81
Insights into the molecular architecture of the 26S proteasome. Proc Natl Acad Sci U S A (2009) 1.81
Structure of β-galactosidase at 3.2-Å resolution obtained by cryo-electron microscopy. Proc Natl Acad Sci U S A (2014) 1.76
Modeling experimental image formation for likelihood-based classification of electron microscopy data. Structure (2007) 1.74
Single-Particle Cryo-EM at Crystallographic Resolution. Cell (2015) 1.74
Semi-automated selection of cryo-EM particles in RELION-1.3. J Struct Biol (2014) 1.68
High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome. Nature (2013) 1.66
JADAS: a customizable automated data acquisition system and its application to ice-embedded single particles. J Struct Biol (2008) 1.62
Single-particle reconstruction of biological macromolecules in electron microscopy--30 years. Q Rev Biophys (2009) 1.61
Classification of structural heterogeneity by maximum-likelihood methods. Methods Enzymol (2010) 1.61
Exploring conformational modes of macromolecular assemblies by multiparticle cryo-EM. Curr Opin Struct Biol (2009) 1.60
Averaging of electron subtomograms and random conical tilt reconstructions through likelihood optimization. Structure (2009) 1.59
3D architecture of DNA Pol alpha reveals the functional core of multi-subunit replicative polymerases. EMBO J (2009) 1.56
Identifying conformational states of macromolecules by eigen-analysis of resampled cryo-EM images. Structure (2011) 1.53
2.8 Å resolution reconstruction of the Thermoplasma acidophilum 20S proteasome using cryo-electron microscopy. Elife (2015) 1.52
Conformational flexibility in the chromatin remodeler RSC observed by electron microscopy and the orthogonal tilt reconstruction method. Proc Natl Acad Sci U S A (2007) 1.49
Electron cryomicroscopy observation of rotational states in a eukaryotic V-ATPase. Nature (2015) 1.47
Structural characterization of mRNA-tRNA translocation intermediates. Proc Natl Acad Sci U S A (2012) 1.42
Localization of the proteasomal ubiquitin receptors Rpn10 and Rpn13 by electron cryomicroscopy. Proc Natl Acad Sci U S A (2012) 1.42
Molecular electron microscopy: state of the art and current challenges. ACS Chem Biol (2008) 1.41
Membrane protein structure determination using cryo-electron tomography and 3D image averaging. Curr Opin Struct Biol (2009) 1.38
The Cryo-EM structure of a complete 30S translation initiation complex from Escherichia coli. PLoS Biol (2011) 1.35
The structure of CCT-Hsc70 NBD suggests a mechanism for Hsp70 delivery of substrates to the chaperonin. Nat Struct Mol Biol (2008) 1.29
Clustering and variance maps for cryo-electron tomography using wedge-masked differences. J Struct Biol (2011) 1.20
Structural analysis of macromolecular assemblies by electron microscopy. Chem Rev (2011) 1.19
Automated multi-model reconstruction from single-particle electron microscopy data. J Struct Biol (2010) 1.18
An introduction to maximum-likelihood methods in cryo-EM. Methods Enzymol (2010) 1.18
Cryo-EM: A Unique Tool for the Visualization of Macromolecular Complexity. Mol Cell (2015) 1.17
A new view of protein synthesis: mapping the free energy landscape of the ribosome using single-molecule FRET. Biopolymers (2008) 1.16
A method for the alignment of heterogeneous macromolecules from electron microscopy. J Struct Biol (2008) 1.16
Understanding ribosome assembly: the structure of in vivo assembled immature 30S subunits revealed by cryo-electron microscopy. RNA (2011) 1.14
Dissecting the in vivo assembly of the 30S ribosomal subunit reveals the role of RimM and general features of the assembly process. Nucleic Acids Res (2013) 1.13
An adaptive Expectation-Maximization algorithm with GPU implementation for electron cryomicroscopy. J Struct Biol (2010) 1.11
Electron microscopy studies on the quaternary structure of p53 reveal different binding modes for p53 tetramers in complex with DNA. Proc Natl Acad Sci U S A (2010) 1.08
Visualizing the transfer-messenger RNA as the ribosome resumes translation. EMBO J (2010) 1.08
Substrate-specific structural rearrangements of human Dicer. Nat Struct Mol Biol (2013) 1.08
CLASSIFICATION BY BOOTSTRAPPING IN SINGLE PARTICLE METHODS. Proc IEEE Int Symp Biomed Imaging (2010) 1.07
Conformational rearrangements of SV40 large T antigen during early replication events. J Mol Biol (2010) 1.05
Rotationally invariant image representation for viewing direction classification in cryo-EM. J Struct Biol (2014) 1.04
Cryo-electron microscopy--a primer for the non-microscopist. FEBS J (2012) 1.04
Maximum likelihood refinement of electron microscopy data with normalization errors. J Struct Biol (2009) 1.04
Flexible tethering of primase and DNA Pol α in the eukaryotic primosome. Nucleic Acids Res (2011) 1.04
Accurate modeling of single-particle cryo-EM images quantitates the benefits expected from using Zernike phase contrast. J Struct Biol (2011) 1.03
Structural and functional characterization of an influenza virus RNA polymerase-genomic RNA complex. J Virol (2010) 1.03
Two RNA-binding motifs in eIF3 direct HCV IRES-dependent translation. Nucleic Acids Res (2013) 1.02
Three-dimensional structure of Bax-mediated pores in membrane bilayers. Cell Death Dis (2013) 1.00
4.6A Cryo-EM reconstruction of tobacco mosaic virus from images recorded at 300 keV on a 4k x 4k CCD camera. J Struct Biol (2010) 1.00
Structural insights into initial and intermediate steps of the ribosome-recycling process. EMBO J (2012) 0.99
Dynamics in cryo EM reconstructions visualized with maximum-likelihood derived variance maps. J Struct Biol (2012) 0.99
Conformational transitions regulate the exposure of a DNA-binding domain in the RuvBL1-RuvBL2 complex. Nucleic Acids Res (2012) 0.99
Toward an atomic model of the 26S proteasome. Curr Opin Struct Biol (2009) 0.97
Intermediate states during mRNA-tRNA translocation. Curr Opin Struct Biol (2012) 0.97
2.9 Å Resolution Cryo-EM 3D Reconstruction of Close-Packed Virus Particles. Structure (2016) 0.95
Cryoelectron microscopy structures of the ribosome complex in intermediate states during tRNA translocation. Proc Natl Acad Sci U S A (2011) 0.95
The ribosome triggers the stringent response by RelA via a highly distorted tRNA. EMBO Rep (2013) 0.95
Cryo-electron microscopy structure of the 30S subunit in complex with the YjeQ biogenesis factor. RNA (2011) 0.95
Functional domains of the 50S subunit mature late in the assembly process. Nucleic Acids Res (2013) 0.94
Anthrax toxin-neutralizing antibody reconfigures the protective antigen heptamer into a supercomplex. Proc Natl Acad Sci U S A (2010) 0.92
Three-dimensional cryoEM reconstruction of native LDL particles to 16Å resolution at physiological body temperature. PLoS One (2011) 0.92
Real-Space x-ray tomographic reconstruction of randomly oriented objects with sparse data frames. Opt Express (2014) 0.91
Multiscale natural moves refine macromolecules using single-particle electron microscopy projection images. Proc Natl Acad Sci U S A (2012) 0.91
Conformations of macromolecules and their complexes from heterogeneous datasets. Philos Trans R Soc Lond B Biol Sci (2014) 0.90
Escherichia coli rimM and yjeQ null strains accumulate immature 30S subunits of similar structure and protein complement. RNA (2013) 0.90
The EM structure of human DNA polymerase gamma reveals a localized contact between the catalytic and accessory subunits. EMBO J (2007) 0.90
Unfolding the mechanism of the AAA+ unfoldase VAT by a combined cryo-EM, solution NMR study. Proc Natl Acad Sci U S A (2016) 0.89
Unravelling biological macromolecules with cryo-electron microscopy. Nature (2016) 0.89
Initial bridges between two ribosomal subunits are formed within 9.4 milliseconds, as studied by time-resolved cryo-EM. Proc Natl Acad Sci U S A (2014) 0.89
Cross-correlation of common lines: a novel approach for single-particle reconstruction of a structure containing a flexible domain. J Struct Biol (2007) 0.89
Structural basis for dynamic regulation of the human 26S proteasome. Proc Natl Acad Sci U S A (2016) 0.87
Story in a sample-the potential (and limitations) of cryo-electron microscopy applied to molecular machines. Biopolymers (2013) 0.85
Insights into the structure of the CCR4-NOT complex by electron microscopy. FEBS Lett (2011) 0.85
The Ribosome Comes Alive. Isr J Chem (2010) 0.84
Single-molecule study of ribosome hierarchic dynamics at the peptidyl transferase center. Biophys J (2010) 0.84
Large terminase conformational change induced by connector binding in bacteriophage T7. J Biol Chem (2013) 0.84
Two promising future developments of cryo-EM: capturing short-lived states and mapping a continuum of states of a macromolecule. Microscopy (Oxf) (2015) 0.83
Introducing robustness to maximum-likelihood refinement of electron-microscopy data. Acta Crystallogr D Biol Crystallogr (2009) 0.83
From cryo-EM, multiple protein structures in one shot. Nat Methods (2007) 0.83
A network of SMG-8, SMG-9 and SMG-1 C-terminal insertion domain regulates UPF1 substrate recruitment and phosphorylation. Nucleic Acids Res (2015) 0.83
Modular architecture of eukaryotic RNase P and RNase MRP revealed by electron microscopy. Nucleic Acids Res (2011) 0.82
Directly reconstructing principal components of heterogeneous particles from cryo-EM images. J Struct Biol (2015) 0.82
Continuous changes in structure mapped by manifold embedding of single-particle data in cryo-EM. Methods (2016) 0.81
Particle migration analysis in iterative classification of cryo-EM single-particle data. J Struct Biol (2014) 0.81
Filling the gap between biology and computer science. BioData Min (2008) 0.81
Single-particle structure determination by X-ray free-electron lasers: Possibilities and challenges. Struct Dyn (2015) 0.80
Problems in fitting high resolution structures into electron microscopic reconstructions. HFSP J (2008) 0.80
Structural basis of signal sequence surveillance and selection by the SRP-FtsY complex. Nat Struct Mol Biol (2013) 0.80
Locking and unlocking of ribosomal motions. Cell (2003) 6.59
Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics. Structure (2008) 5.97
SPIDER image processing for single-particle reconstruction of biological macromolecules from electron micrographs. Nat Protoc (2008) 4.60
Outcome of the first electron microscopy validation task force meeting. Structure (2012) 4.35
Incorporation of aminoacyl-tRNA into the ribosome as seen by cryo-electron microscopy. Nat Struct Biol (2003) 3.77
Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation. EMBO J (2004) 3.69
Dynamic reorganization of the functionally active ribosome explored by normal mode analysis and cryo-electron microscopy. Proc Natl Acad Sci U S A (2003) 3.64
Visualization of the hybrid state of tRNA binding promoted by spontaneous ratcheting of the ribosome. Mol Cell (2008) 3.58
Cryo-EM reveals an active role for aminoacyl-tRNA in the accommodation process. EMBO J (2002) 3.57
Molecular architecture of the human pre-mRNA 3' processing complex. Mol Cell (2009) 3.52
Structure of the signal recognition particle interacting with the elongation-arrested ribosome. Nature (2004) 3.31
Structure of the E. coli protein-conducting channel bound to a translating ribosome. Nature (2005) 3.10
Study of the structural dynamics of the E coli 70S ribosome using real-space refinement. Cell (2003) 3.03
Maximum-likelihood multi-reference refinement for electron microscopy images. J Mol Biol (2005) 3.00
The cryo-EM structure of a translation initiation complex from Escherichia coli. Cell (2005) 2.91
Cryo-EM visualization of a viral internal ribosome entry site bound to human ribosomes: the IRES functions as an RNA-based translation factor. Cell (2004) 2.84
Structure of ratcheted ribosomes with tRNAs in hybrid states. Proc Natl Acad Sci U S A (2008) 2.77
Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis. Proc Natl Acad Sci U S A (2009) 2.69
Visualizing tmRNA entry into a stalled ribosome. Science (2003) 2.67
Structures of modified eEF2 80S ribosome complexes reveal the role of GTP hydrolysis in translocation. EMBO J (2007) 2.48
The process of mRNA-tRNA translocation. Proc Natl Acad Sci U S A (2007) 2.45
A cryo-electron microscopic study of ribosome-bound termination factor RF2. Nature (2003) 2.42
Characterization and comprehensive proteome profiling of exosomes secreted by hepatocytes. J Proteome Res (2008) 2.41
Outcome of a workshop on archiving structural models of biological macromolecules. Structure (2006) 2.32
Regulation of eukaryotic translation by the RACK1 protein: a platform for signalling molecules on the ribosome. EMBO Rep (2004) 2.28
Identification of the versatile scaffold protein RACK1 on the eukaryotic ribosome by cryo-EM. Nat Struct Mol Biol (2004) 2.27
The extracellular architecture of adherens junctions revealed by crystal structures of type I cadherins. Structure (2011) 2.19
Estimation of variance in single-particle reconstruction using the bootstrap technique. J Struct Biol (2006) 2.10
Quaternary structures of tumor suppressor p53 and a specific p53 DNA complex. Proc Natl Acad Sci U S A (2007) 2.09
Hepatitis-C-virus-like internal ribosome entry sites displace eIF3 to gain access to the 40S subunit. Nature (2013) 1.95
A method of focused classification, based on the bootstrap 3D variance analysis, and its application to EF-G-dependent translocation. J Struct Biol (2006) 1.95
Focused-ion-beam thinning of frozen-hydrated biological specimens for cryo-electron microscopy. Nat Methods (2007) 1.92
Preparation of macromolecular complexes for cryo-electron microscopy. Nat Protoc (2007) 1.90
RF3 induces ribosomal conformational changes responsible for dissociation of class I release factors. Cell (2007) 1.89
Fast maximum-likelihood refinement of electron microscopy images. Bioinformatics (2005) 1.83
Determination of signal-to-noise ratios and spectral SNRs in cryo-EM low-dose imaging of molecules. J Struct Biol (2009) 1.81
Insights into the molecular architecture of the 26S proteasome. Proc Natl Acad Sci U S A (2009) 1.81
Visualization of ribosome-recycling factor on the Escherichia coli 70S ribosome: functional implications. Proc Natl Acad Sci U S A (2004) 1.81
Modeling experimental image formation for likelihood-based classification of electron microscopy data. Structure (2007) 1.74
Ribosome dynamics: insights from atomic structure modeling into cryo-electron microscopy maps. Annu Rev Biophys Biomol Struct (2006) 1.71
Structure of the mammalian ribosomal 43S preinitiation complex bound to the scanning factor DHX29. Cell (2013) 1.68
High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome. Nature (2013) 1.66
Structure of the connector of bacteriophage T7 at 8A resolution: structural homologies of a basic component of a DNA translocating machinery. J Mol Biol (2005) 1.63
An unbiased cDNA library prepared from isolated Aplysia sensory neuron processes is enriched for cytoskeletal and translational mRNAs. J Neurosci (2003) 1.61
Averaging of electron subtomograms and random conical tilt reconstructions through likelihood optimization. Structure (2009) 1.59
Mechanism for the disassembly of the posttermination complex inferred from cryo-EM studies. Mol Cell (2005) 1.58
Automated acquisition of cryo-electron micrographs for single particle reconstruction on an FEI Tecnai electron microscope. J Struct Biol (2005) 1.58
Elongation arrest by SecM via a cascade of ribosomal RNA rearrangements. Mol Cell (2006) 1.57
The role of tRNA as a molecular spring in decoding, accommodation, and peptidyl transfer. FEBS Lett (2005) 1.52
Dynamics of EF-G interaction with the ribosome explored by classification of a heterogeneous cryo-EM dataset. J Struct Biol (2004) 1.46
Elongation in translation as a dynamic interaction among the ribosome, tRNA, and elongation factors EF-G and EF-Tu. Q Rev Biophys (2009) 1.45
Structural characterization of mRNA-tRNA translocation intermediates. Proc Natl Acad Sci U S A (2012) 1.42
Flexible fitting in 3D-EM guided by the structural variability of protein superfamilies. Structure (2006) 1.41
Interaction of the G' domain of elongation factor G and the C-terminal domain of ribosomal protein L7/L12 during translocation as revealed by cryo-EM. Mol Cell (2005) 1.38
The Cryo-EM structure of a complete 30S translation initiation complex from Escherichia coli. PLoS Biol (2011) 1.35
Towards high-resolution three-dimensional imaging of native mammalian tissue: electron tomography of frozen-hydrated rat liver sections. J Struct Biol (2005) 1.35
Unsupervised classification of single particles by cluster tracking in multi-dimensional space. J Struct Biol (2006) 1.31
Characterization of the nuclear export adaptor protein Nmd3 in association with the 60S ribosomal subunit. J Cell Biol (2010) 1.30
Large T antigen on the simian virus 40 origin of replication: a 3D snapshot prior to DNA replication. EMBO J (2003) 1.30
Transfer RNA in the hybrid P/E state: correlating molecular dynamics simulations with cryo-EM data. Proc Natl Acad Sci U S A (2007) 1.29
SPIRE: the SPIDER reconstruction engine. J Struct Biol (2006) 1.28
Exploration of parameters in cryo-EM leading to an improved density map of the E. coli ribosome. J Struct Biol (2008) 1.28
Definition and estimation of resolution in single-particle reconstructions. Structure (2010) 1.27
Particle-verification for single-particle, reference-based reconstruction using multivariate data analysis and classification. J Struct Biol (2008) 1.27
A symmetrical tetramer for S. aureus pyruvate carboxylase in complex with coenzyme A. Structure (2009) 1.26
Cryo-EM visualization of transfer messenger RNA with two SmpBs in a stalled ribosome. Proc Natl Acad Sci U S A (2006) 1.24
Candidate biomarkers in exosome-like vesicles purified from rat and mouse urine samples. Proteomics Clin Appl (2010) 1.21
Recognition of aminoacyl-tRNA: a common molecular mechanism revealed by cryo-EM. EMBO J (2008) 1.21
Functional conformations of the L11-ribosomal RNA complex revealed by correlative analysis of cryo-EM and molecular dynamics simulations. RNA (2006) 1.20
Integrity of the P-site is probed during maturation of the 60S ribosomal subunit. J Cell Biol (2012) 1.20
Localization and dynamic behavior of ribosomal protein L30e. Nat Struct Mol Biol (2005) 1.18
An introduction to maximum-likelihood methods in cryo-EM. Methods Enzymol (2010) 1.18
Particle picking by segmentation: a comparative study with SPIDER-based manual particle picking. J Struct Biol (2005) 1.17
The structure of the 80S ribosome from Trypanosoma cruzi reveals unique rRNA components. Proc Natl Acad Sci U S A (2005) 1.13
Interactions of the release factor RF1 with the ribosome as revealed by cryo-EM. J Mol Biol (2006) 1.11
Electron tomographic analysis of frozen-hydrated tissue sections. J Struct Biol (2002) 1.11
Visualization of macromolecular complexes using cryo-electron microscopy with FEI Tecnai transmission electron microscopes. Nat Protoc (2008) 1.09
Structural insights on the translation initiation complex: ghosts of a universal initiation complex. Mol Microbiol (2007) 1.09
Visualizing the transfer-messenger RNA as the ribosome resumes translation. EMBO J (2010) 1.08
An approach to examining model dependence in EM reconstructions using cross-validation. J Struct Biol (2003) 1.08
Electron microscopy studies on the quaternary structure of p53 reveal different binding modes for p53 tetramers in complex with DNA. Proc Natl Acad Sci U S A (2010) 1.08
Reconstitution of proapoptotic BAK function in liposomes reveals a dual role for mitochondrial lipids in the BAK-driven membrane permeabilization process. J Biol Chem (2011) 1.08
Scaffolding as an organizing principle in trans-translation. The roles of small protein B and ribosomal protein S1. J Biol Chem (2006) 1.07
CLASSIFICATION BY BOOTSTRAPPING IN SINGLE PARTICLE METHODS. Proc IEEE Int Symp Biomed Imaging (2010) 1.07
Structural insights into cognate versus near-cognate discrimination during decoding. EMBO J (2011) 1.07
Molecular dynamics of EF-G during translocation. Proteins (2011) 1.07