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List of works by Eric Westhof

A Large-Scale Assessment of Nucleic Acids Binding Site Prediction Programs

scientific article published on 17 December 2015

A new understanding of the decoding principle on the ribosome

scientific article

A novel double kink-turn module in euryarchaeal RNase P RNAs

scientific article

A pH-responsive riboregulator

scientific article

A structural module in RNase P expands the variety of RNA kinks

scientific article published on March 2012

A surprisingly large RNase P RNA in Candida glabrata

scientific article published in July 2005

A tale in molecular recognition: the hammerhead ribozyme.

scientific article published in January 2007

An integrated, structure- and energy-based view of the genetic code

scientific article published on 22 July 2016

An mRNA is capped by a 2', 5' lariat catalyzed by a group I-like ribozyme

scientific article

Anion binding to nucleic acids

scientific article published in March 2004

Antibacterial aminoglycosides with a modified mode of binding to the ribosomal-RNA decoding site

scientific article published in December 2004

Architecture and folding mechanism of the Azoarcus Group I Pre-tRNA.

scientific article

Architecture of a Diels-Alderase ribozyme with a preformed catalytic pocket

scientific article published in September 2004

Assemble: an interactive graphical tool to analyze and build RNA architectures at the 2D and 3D levels

scientific article

Assembly of core helices and rapid tertiary folding of a small bacterial group I ribozyme

scientific article

Automated prediction of three-way junction topological families in RNA secondary structures ⬇️

scientific article published on January 11, 2012

Base pairs and pseudo pairs observed in RNA-ligand complexes

scientific article published in March 2010

Binding of manganese(II) to a tertiary stabilized hammerhead ribozyme as studied by electron paramagnetic resonance spectroscopy

scientific article published in January 2005

Binding of tobramycin leads to conformational changes in yeast tRNA(Asp) and inhibition of aminoacylation

scientific article published on February 2002

Biogenesis of Circular RNAs

scientific article published in September 2014

Brownian-dynamics simulations of metal-ion binding to four-way junctions ⬇️

scientific article published on January 15, 2002

Chemistry. Self-assembled RNA nanostructures

scientific article published in August 2014

Classification of pseudo pairs between nucleotide bases and amino acids by analysis of nucleotide–protein complexes ⬇️

scientific article published on July 7, 2011

Comparative genomics of emerging pathogens in the Candida glabrata clade

scientific article

Comparative genomics of protoploid Saccharomycetaceae

scientific article

Comparative patterns of modified nucleotides in individual tRNA species from a mesophilic and two thermophilic archaea

scientific article published on 29 September 2020

Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models

scientific article published on 25 August 2022

Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution

scientific article

Crystal structure and fluorescence properties of the iSpinach aptamer in complex with DFHBI.

scientific article published on 22 September 2017

Crystal structure of a complex between the aminoglycoside tobramycin and an oligonucleotide containing the ribosomal decoding a site

scientific article

Crystal structure of geneticin bound to a bacterial 16S ribosomal RNA A site oligonucleotide

scientific article (publication date: 28 February 2003)

Crystal structure of the bacterial ribosomal decoding site complexed with a synthetic doubly functionalized paromomycin derivative: a new specific binding mode to an a-minor motif enhances in vitro antibacterial activity

scientific article

Crystal structure of the bacterial ribosomal decoding site complexed with amikacin containing the gamma-amino-alpha-hydroxybutyryl (haba) group

scientific article published on 13 June 2006

Crystal structures of a group II intron lariat primed for reverse splicing

scientific article published in December 2016

Crystal structures of complexes between aminoglycosides and decoding A site oligonucleotides: role of the number of rings and positive charges in the specific binding leading to miscoding

scientific article

Determination of thermodynamic parameters for HIV DIS type loop-loop kissing complexes

scientific article published on 30 September 2004

Differential selectivity of natural and synthetic aminoglycosides towards the eukaryotic and prokaryotic decoding A sites

scientific article

Distinctive structures between chimpanzee and human in a brain noncoding RNA

scientific article

Docking of aminoglycosides to hydrated and flexible RNA.

scientific article published in February 2006

Effects of magnesium ions on the stabilization of RNA oligomers of defined structures

scientific article

Evaluation of the stereochemical quality of predicted RNA 3D models in the RNA-Puzzles submissions

scientific article published in February 2022

Evaluation of the stereochemical quality of predicted RNA 3D models in the RNA-Puzzles submissions

scientific article published on 23 August 2021

Frequency and isostericity of RNA base pairs

scientific article published on 24 February 2009

Functional hammerhead ribozymes naturally encoded in the genome of Arabidopsis thaliana

scientific article

Genome evolution in yeasts

scientific article

High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome

scientific article

How to fold and protect mitochondrial ribosomal RNA with fewer guanines

How to silence silencing

scientific article published in February 2004

Identification and annotation of noncoding RNAs in Saccharomycotina ⬇️

scientific article published on 06 July 2011

Importance of potassium ions for ribosome structure and function revealed by long-wavelength X-ray diffraction.

scientific article published on 7 June 2019

In-line alignment and Mg²⁺ coordination at the cleavage site of the env22 twister ribozyme

scientific article

Inhibition of Aminoglycoside‐Deactivating Enzymes APH(3′)‐IIIa and AAC(6′)‐Ii by Amphiphilic Paromomycin O2′′‐Ether Analogues ⬇️

scientific article published on September 8, 2011

Isostericity and tautomerism of base pairs in nucleic acids

scientific article

Localization of eukaryote-specific ribosomal proteins in a 5.5-Å cryo-EM map of the 80S eukaryotic ribosome

scientific article

MAO: a Multiple Alignment Ontology for nucleic acid and protein sequences

scientific article

Melting of the solvent structure around a RNA duplex: a molecular dynamics simulation study

scientific article

Metal ion binding to RNA

scientific article published on January 1, 2011

Mining for recurrent long-range interactions in RNA structures reveals embedded hierarchies in network families

scientific article published on 28 March 2018

Molecular adaptation in RNA complexes

scientific article

Molecular contacts between antibiotics and the 30S ribosomal particle

scientific article

Molecular modeling of the three-dimensional structure of the bacterial RNase P holoenzyme

scientific article (publication date: 24 January 2003)

Molecular modelling of the GIR1 branching ribozyme gives new insight into evolution of structurally related ribozymes

scientific article

Molecular recognition of aminoglycoside antibiotics by ribosomal RNA and resistance enzymes: an analysis of x-ray crystal structures

scientific article

Monitoring intermediate folding states of the td group I intron in vivo

scientific article published on October 2002

Mutant MRPS5 affects mitoribosomal accuracy and confers stress-related behavioral alterations

scientific article published on 20 September 2018

Mutation in a primate-conserved retrotransposon reveals a noncoding RNA as a mediator of infantile encephalopathy

scientific article published on 12 March 2012

New Dimensions of RNA in Molecular Recognition and Catalysis ⬇️

scientific article published on December 20, 2011

New Structural Insights into Translational Miscoding

scientific article

New metrics for comparing and assessing discrepancies between RNA 3D structures and models

scientific article published on 26 August 2009

New structural insights into the decoding mechanism: translation infidelity via a G·U pair with Watson-Crick geometry

scientific article published on 23 May 2013

Nucleic acids: how high resolution structural biology help us to understand Darwinian evolution

scientific article published on 29 May 2009

Pichia sorbitophila, an Interspecies Yeast Hybrid, Reveals Early Steps of Genome Resolution After Polyploidization

scientific article published on February 2012

Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate

scientific article (publication date: 3 December 2010)

Predicting and modeling RNA architecture

scientific article published on February 2011

Prediction of nucleic acid binding probability in proteins: a neighboring residue network based score

scientific article published on 4 May 2015

Pronounced instability of tandem IU base pairs in RNA.

scientific article published on 22 March 2004

Proximity of conserved U6 and U2 snRNA elements to the 5' splice site region in activated spliceosomes

scientific article published on 11 May 2006

RBscore&NBench: a high-level web server for nucleic acid binding residues prediction with a large-scale benchmarking database

scientific article published on 15 April 2016

RNA Structure and Folding, edited by Dagmar Klostermeier and Christian Hammann. 2013. De Gruyter, Berlin/Boston.

scientific article published in December 2014

RNA Structure: Advances and Assessment of 3D Structure Prediction

scientific article published on 30 March 2017

RNA as a Drug Target: The Case of Aminoglycosides ⬇️

scientific article published on October 6, 2003

RNA modeling, naturally ⬇️

scientific article published on February 3, 2012

RNA structure analysis of human spliceosomes reveals a compact 3D arrangement of snRNAs at the catalytic core

scientific article

RNA structure from deep sequencing

scientific article published on September 2015

RNA structure: bioinformatic analysis

scientific article published on 4 June 2007

RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures

scientific article published on 16 April 2015

RNA-Puzzles Round III: 3D RNA structure prediction of five riboswitches and one ribozyme

scientific article

RNA-Puzzles Round IV: 3D structure predictions of four ribozymes and two aptamers

scientific article published on 05 May 2020

RNA-Puzzles toolkit: a computational resource of RNA 3D structure benchmark datasets, structure manipulation, and evaluation tools

scientific article published on 01 January 2020

RNA-Puzzles: a CASP-like evaluation of RNA three-dimensional structure prediction

scientific article published on 23 February 2012

RNAML: a standard syntax for exchanging RNA information.

scientific article

RNase P: at last, the key finds its lock

scientific article

Recent Advances in Mitochondrial Aminoacyl-tRNA Synthetases and Disease

scientific article

Recognition of Watson-Crick base pairs: constraints and limits due to geometric selection and tautomerism

scientific article published on April 2014

Recurrent structural RNA motifs, Isostericity Matrices and sequence alignments

scientific article

Riboswitch structures: purine ligands replace tertiary contacts

scientific article

Searching genomes for ribozymes and riboswitches

scientific article published on January 2007

Sequence elements outside the hammerhead ribozyme catalytic core enable intracellular activity

scientific article (publication date: September 2003)

Sequence to Structure (S2S): display, manipulate and interconnect RNA data from sequence to structure

scientific article

Sequence-based identification of 3D structural modules in RNA with RMDetect

scientific article published on 8 May 2011

Speciation of a group I intron into a lariat capping ribozyme

scientific article

Specific features of telomerase RNA from Hansenula polymorpha

scientific article published on 17 September 2013

Structural biology. Evolution of RNA architecture

scientific article

Structural insights into the translational infidelity mechanism

scientific article

Structure of Monomeric Yeast and Mammalian Sec61 Complexes Interacting with the Translating Ribosome

scientific article

Structure of an A-form RNA duplex obtained by degradation of 6S RNA in a crystallization droplet

scientific article

Structure of the ribosome-bound cricket paralysis virus IRES RNA.

scientific article

Structure-based design, synthesis and A-site rRNA co-crystal complexes of novel amphiphilic aminoglycoside antibiotics with new binding modes: A synergistic hydrophobic effect against resistant bacteria ⬇️

scientific article published on September 19, 2010

Structure-based design, synthesis, and A-site rRNA cocrystal complexes of functionally novel aminoglycoside antibiotics: C2" ether analogues of paromomycin.

scientific article published on 26 April 2007

Symmetric K+ and Mg2+ ion-binding sites in the 5S rRNA loop E inferred from molecular dynamics simulations

scientific article published in January 2004

The Endless Subtleties of RNA-Protein Complexes ⬇️

scientific article published on July 13, 2011

The Molecular Basis for A‐Site Mutations Conferring Aminoglycoside Resistance: Relationship between Ribosomal Susceptibility and X‐ray Crystal Structures ⬇️

scientific article published on October 6, 2003

The RNA Ontology Consortium: an open invitation to the RNA community

scientific article published on 16 February 2006

The RNA polymerase III-dependent family of genes in hemiascomycetes: comparative RNomics, decoding strategies, transcription and evolutionary implications

scientific article

The RNA structure alignment ontology

scientific article published on 21 July 2009

The amazing world of bacterial structured RNAs

scientific article

The annotation of RNA motifs

scientific article

The bacterial and mitochondrial ribosomal A-site molecular switches possess different conformational substates

scientific article

The complete genome of Blastobotrys (Arxula) adeninivorans LS3 - a yeast of biotechnological interest

scientific article

The multiple flavors of GoU pairs in RNA.

scientific article

The non-Watson-Crick base pairs and their associated isostericity matrices

scientific article

The ribosome prohibits the G•U wobble geometry at the first position of the codon-anticodon helix

scientific article

The ribozyme core of group II introns: a structure in want of partners

scientific article published on 18 March 2009

The three-dimensional architecture of the class I ligase ribozyme

scientific article

The unforeseeable hammerhead ribozyme ⬇️

scientific article published on January 21, 2009

The viral protein NSP1 acts as a ribosome gatekeeper for shutting down host translation and fostering SARS-CoV-2 translation

scientific article published on 02 December 2020

The viral protein NSP1 acts as a ribosome gatekeeper for shutting down host translation and fostering SARS-CoV-2 translation

scientific article published on 14 October 2020

Tools for the automatic identification and classification of RNA base pairs

scientific article

Topology of three-way junctions in folded RNAs

scientific article published in January 2006

Toward predicting self-splicing and protein-facilitated splicing of group I introns

scientific article

Transcriptome-wide identification of A > I RNA editing sites by inosine specific cleavage

scientific article published on 21 December 2012

Translation of non-standard codon nucleotides reveals minimal requirements for codon-anticodon interactions

scientific article published in Nature Communications

Twenty years of RNA crystallography

scientific article

Two conformational states in the crystal structure of the Homo sapiens cytoplasmic ribosomal decoding A site

scientific article

Unusual tertiary pairs in eukaryotic tRNA-Ala

scientific article published on 31 July 2020

Using droplet-based microfluidics to improve the catalytic properties of RNA under multiple-turnover conditions

scientific article

Visualization of macromolecular structures.

scientific article

iSpinach: a fluorogenic RNA aptamer optimized for in vitro applications

scientific article

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