E. Ennifar

发表

Machine learning of reverse transcription signatures of variegated polymerases allows mapping and discrimination of methylated purines in limited transcriptomes

R. Micura, A. Hildebrandt, M. Helm, 2020, Nucleic acids research.

Thermodynamic study of aptamers binding to their target proteins.

Yoshikazu Nakamura, E. Ennifar, T. Sakamoto, 2017, Biochimie.

Crystal structure of the S15–rRNA complex

Philippe Dumas, Chantal Ehresmann, Bernard Ehresmann, 2000, Nature Structural Biology.

Sodium and Potassium Interactions with Nucleic Acids.

P. Auffinger, E. Ennifar, Luigi D’Ascenzo, 2016, Metal ions in life sciences.

Molecular Mimicry in Translational Regulation: The Case of Ribosomal Protein S15

A. Serganov, D. Patel, C. Ehresmann, 2004, RNA biology.

Do mRNA and rRNA binding sites of E.coli ribosomal protein S15 share common structural determinants?

A. Serganov, C. Ehresmann, B. Ehresmann, 2002, Journal of molecular biology.

Role of conserved nucleotides in building the 16 S rRNA binding site for ribosomal protein S15.

A. Serganov, C. Ehresmann, M. Garber, 2001, Journal of molecular biology.

The “Phantom Effect” of the Rexinoid LG100754: Structural and Functional Insights

D. Moras, Yoshiteru Sato, N. Rochel, 2010, PloS one.

Nucleic Acid Crystallography

E. Ennifar, 2016, Methods in Molecular Biology.

Multianalytical Study of the Binding between a Small Chiral Molecule and a DNA Aptamer: Evidence for Asymmetric Steric Effect upon 3'- versus 5'-End Sequence Modification.

E. Peyrin, P. Labbé, P. Dumas, 2016, Analytical chemistry.

Native ESI Mass Spectrometry Can Help to Avoid Wrong Interpretations from Isothermal Titration Calorimetry in Difficult Situations

P. Dumas, G. Guichard, G. Bec, 2016, Journal of The American Society for Mass Spectrometry.

Discovery of chiral cyclopropyl dihydro-alkylthio-benzyl-oxopyrimidine (S-DABO) derivatives as potent HIV-1 reverse transcriptase inhibitors with high activity against clinically relevant mutants.

M. Radi, S. Zanoli, G. Maga, 2009, Journal of medicinal chemistry.

Towards a comprehensive understanding of RNA deamination: synthesis and properties of xanthosine-modified RNA

R. Micura, K. Brillet, C. Kreutz, 2022, Nucleic acids research.

Specific conformational dynamics of the ATPase head domains and DNA exit gate mediate the Cohesin ATPase cycle

C. Romier, E. Watrin, K. Brillet, 2022, bioRxiv.

The structure of the mouse ADAT2/ADAT3 complex reveals the molecular basis for mammalian tRNA wobble adenosine-to-inosine deamination

L. Drouard, C. Romier, Efil Bayam, 2021, Nucleic acids research.

Impact of 3-deazapurine nucleobases on RNA properties

R. Micura, E. Mairhofer, K. Breuker, 2021, Nucleic acids research.

Deflating the RNA Mg2+ bubble: stereochemistry to the rescue!

P. Auffinger, E. Ennifar, Luigi D’Ascenzo, 2020, bioRxiv.

Role of a ribosomal RNA phosphate oxygen during the EF-G–triggered GTP hydrolysis

R. Micura, N. Polacek, C. Kreutz, 2015, Proceedings of the National Academy of Sciences.

Surprising Base Pairing and Structural Properties of 2′-Trifluoromethylthio-Modified Ribonucleic Acids

R. Micura, C. Kreutz, E. Ennifar, 2014, Journal of the American Chemical Society.

1-Deazaguanosine-Modified RNA: The Missing Piece for Functional RNA Atomic Mutagenesis

R. Micura, K. Breuker, C. Kreutz, 2022, Journal of the American Chemical Society.

Synthesis, Thermodynamic Properties, and Crystal Structure of RNA Oligonucleotides Containing 5-Hydroxymethylcytosine.

R. Micura, A. Lusser, C. Riml, 2017, The Journal of organic chemistry.

Sequence and structure requirements for specific recognition of HIV-1 TAR and DIS RNA by the HIV-1 Vif protein

P. Dumas, Y. Nominé, C. Romier, 2012, RNA biology.

Safe and easy in vitro evaluation of tmRNA-SmpB-mediated trans-translation from ESKAPE pathogenic bacteria

R. Gillet, M. Thépaut, F. Barloy-Hubler, 2021, RNA.

Structure-guided discovery of a novel aminoglycoside conjugate targeting HIV-1 RNA viral genome.

P. Dumas, F. V. van Delft, G. Hoffmann, 2013, ACS chemical biology.

Synthesis and antimicrobial evaluation of amphiphilic neamine derivatives.

I. Baussanne, S. Halder, J. Décout, 2010, Journal of medicinal chemistry.

The canonical helix of urea oligomers at atomic resolution: insights into folding-induced axial organization.

C. Didierjean, E. Miclet, G. Guichard, 2009, Angewandte Chemie.

Native Electrospray Ionization Mass Spectrometry of RNA-Ligand Complexes.

E. Ennifar, P. Wolff, 2020, Methods in molecular biology.

Aminoglycoside binding to the HIV-1 RNA dimerization initiation site: thermodynamics and effect on the kissing-loop to duplex conversion

P. Dumas, C. Maechling, S. Bernacchi, 2007, Nucleic acids research.

HIV-1 RT Inhibitors with a Novel Mechanism of Action: NNRTIs that Compete with the Nucleotide Substrate

M. Radi, G. Maga, M. Botta, 2010, Viruses.

AFFINImeter: A software to analyze molecular recognition processes from experimental data.

Miguel Costas, Philippe Dumas, Carmen Cotelo, 2019, Analytical biochemistry.

Controlling helix formation in the γ-peptide superfamily: heterogeneous foldamers with urea/amide and urea/carbamate backbones.

M. Laguerre, C. Douat, G. Guichard, 2013, Angewandte Chemie.

Helix-forming propensity of aliphatic urea oligomers incorporating noncanonical residue substitution patterns.

M. Laguerre, D. Cavagnat, B. Desbat, 2013, Journal of the American Chemical Society.

X-ray-induced debromination of nucleic acids at the Br K absorption edge and implications for MAD phasing.

J. Ferrer, P. Dumas, P. Carpentier, 2002, Acta crystallographica. Section D, Biological crystallography.

A multi-laboratory benchmark study of isothermal titration calorimetry (ITC) using Ca2+ and Mg2+ binding to EDTA

O. Abián, A. Velázquez‐Campoy, J. Chaires, 2021, European Biophysics Journal.

Microcalorimetry of Biological Molecules

E. Ennifar, 2019, Methods in Molecular Biology.

ITC Studies of Ribosome/Antibiotics Interactions.

E. Ennifar, E. Schenckbecher, B. Meyer, 2019, Methods in molecular biology.

Conformations of Flanking Bases in HIV-1 RNA DIS Kissing Complexes Studied by Molecular Dynamics

Jaroslav Koča, Petr Kulhánek, Tadeusz Kulinski, 2007, Biophysical journal.

A crystallographic study of the binding of 13 metal ions to two related RNA duplexes.

P. Dumas, E. Ennifar, P. Walter, 2003, Nucleic acids research.

Deflating the RNA Mg2+ bubble: stereochemistry to the rescue!

P. Auffinger, E. Ennifar, Luigi D’Ascenzo, 2020, RNA.

Different views of the dynamic landscape covered by the 5'-hairpin of the 7SK small nuclear RNA

K. Brillet, I. Lebars, A. Dock-Brégeon, 2020, RNA.

2′-O-Trifluoromethylated RNA – a powerful modification for RNA chemistry and NMR spectroscopy†‡

R. Micura, C. Kreutz, E. Ennifar, 2020, Chemical science.

2′-Azido RNA, a Versatile Tool for Chemical Biology: Synthesis, X-ray Structure, siRNA Applications, Click Labeling

R. Micura, M. Aigner, C. Kreutz, 2012, ACS chemical biology.

Binding of aminoglycoside antibiotics to the duplex form of the HIV-1 genomic RNA dimerization initiation site.

R. Micura, P. Dumas, Kathrin Lang, 2008, Angewandte Chemie.

Thioguanosine Conversion Enables mRNA‐Lifetime Evaluation by RNA Sequencing Using Double Metabolic Labeling (TUC‐seq DUAL)

Dietmar Rieder, Eric Ennifar, Alexandra Lusser, 2020, Angewandte Chemie.

Structure-based design of short peptide ligands binding onto the E. coli processivity ring.

J. Wagner, P. Dumas, V. Olieric, 2011, Journal of medicinal chemistry.

Escherichia coli CspA stimulates translation in the cold of its own mRNA by promoting ribosome progression

A. Giuliodori, S. Marzi, V. Hauryliuk, 2023, Frontiers in Microbiology.

The RNA chaperone protein CspA stimulates translation during cold acclimation by promoting the progression of the ribosomes

A. Giuliodori, S. Marzi, V. Hauryliuk, 2021, bioRxiv.

Safe and easy evaluation of tmRNA-SmpB-mediated trans-translation in ESKAPE pathogenic bacteria

R. Gillet, F. Barloy-Hubler, E. Ennifar, 2020, bioRxiv.

UV Melting Studies with RNA

P. Dumas, E. Ennifar, P. Walter, 2014 .

Thermodynamic properties distinguish human mitochondrial aspartyl-tRNA synthetase from bacterial homolog with same 3D architecture

B. Lorber, C. Florentz, C. Sauter, 2012, Nucleic acids research.

Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation.

D. Suck, A. Stewart, F. Buchholz, 2003, Nucleic acids research.

Molecular basis and specificity of H2A.Z–H2B recognition and deposition by the histone chaperone YL1

C. Romier, S. Dimitrov, A. Hamiche, 2016, Nature Structural &Molecular Biology.

Mechanism of Hairpin-Duplex Conversion for the HIV-1 Dimerization Initiation Site*

J. Langowski, P. Dumas, K. Toth, 2005, Journal of Biological Chemistry.

The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges.

C. Ehresmann, P. Walter, P. Dumas, 1999, Structure.

Disorder-to-order transition of MAGI-1 PDZ1 C-terminal extension upon peptide binding: thermodynamic and dynamic insights.

Y. Nominé, S. Charbonnier, G. Travé, 2015, Biochemistry.

Analysis of the HIV-1 Genomic RNA Dimerization Initiation Site Binding to Aminoglycoside Antibiotics Using Isothermal Titration Calorimetry.

S. Bernacchi, E. Ennifar, 2020, Methods in molecular biology.

HIV-1 DIS stem loop forms an obligatory bent kissing intermediate in the dimerization pathway

A. Feig, D. Rueda, E. Ennifar, 2014, Nucleic acids research.

Cation-dependent cleavage of the duplex form of the subtype-B HIV-1 RNA dimerization initiation site

P. Dumas, E. Ennifar, P. Walter, 2010, Nucleic acids research.

AKAP149 binds to HIV-1 reverse transcriptase and is involved in the reverse transcription.

J. Rain, G. Maga, R. Benarous, 2008, Journal of molecular biology.

Characterization of Histone Deacetylase 8 (HDAC8) Selective Inhibition Reveals Specific Active Site Structural and Functional Determinants.

Takayoshi Suzuki, W. Sippl, C. Romier, 2018, Journal of medicinal chemistry.

Isothermal Titration Calorimetry: Assisted Crystallization of RNA-Ligand Complexes.

P. Dumas, E. Ennifar, Cyrielle da Veiga, 2016, Methods in molecular biology.

Extending ITC to Kinetics with kinITC.

Philippe Dumas, Eva Muñoz, Eric Ennifar, 2016, Methods in enzymology.

Crystal structure of HIV-1 reverse transcriptase bound to a non-nucleoside inhibitor with a novel mechanism of action.

M. Radi, E. Crespan, G. Maga, 2010, Angewandte Chemie.

Molecular insights into the ligand-controlled organization of the SAM-I riboswitch.

D. Lafontaine, J. Penedo, J. Mulhbacher, 2011, Nature chemical biology.

Quantitative and predictive model of kinetic regulation by E. coli TPP riboswitches

F. Jossinet, P. Dumas, S. Thore, 2016, RNA biology.

Microcalorimetry as a tool for structural biology

P. Dumas, E. Ennifar, D. Burnouf, 2015 .

kinITC: a new method for obtaining joint thermodynamic and kinetic data by isothermal titration calorimetry.

Philippe Dumas, Guillaume Hoffmann, Eric Ennifar, 2012, Journal of the American Chemical Society.

Differential modes of peptide binding onto replicative sliding clamps from various bacterial origins.

B. Lorber, J. Wagner, V. Olieric, 2014, Journal of medicinal chemistry.

Influence of C-5 halogenation of uridines on hairpin versus duplex RNA folding.

P. Dumas, S. Bernacchi, E. Ennifar, 2007, RNA.

Phasing in the presence of severe site-specific radiation damage through dose-dependent modelling of heavy atoms.

G Bricogne, C Vonrhein, C Flensburg, 2004, Acta crystallographica. Section D, Biological crystallography.

Using X-ray absorption spectra to monitor specific radiation damage to anomalously scattering atoms in macromolecular crystallography.

P. Dumas, V. Olieric, A. Meents, 2007, Acta crystallographica. Section D, Biological crystallography.

HuR interacts with human immunodeficiency virus type 1 reverse transcriptase, and modulates reverse transcription in infected cells

J. Rain, R. Benarous, J. Lemay, 2008, Retrovirology.

Thermodynamics of HIV-1 reverse transcriptase in action elucidates the mechanism of action of non-nucleoside inhibitors.

R. Micura, P. Dumas, G. Bec, 2013, Journal of the American Chemical Society.

A structure-based approach for targeting the HIV-1 genomic RNA dimerization initiation site.

P. Dumas, J. Décout, S. Bernacchi, 2007, Biochimie.

Targeting the dimerization initiation site of HIV-1 RNA with aminoglycosides: from crystal to cell

Philippe Dumas, Roland Marquet, Patrick Pale, 2006, Nucleic acids research.

The Design of RNA Binders: Targeting the HIV Replication Cycle as a Case Study

C. Tisné, E. Ennifar, L. Micouin, 2014, ChemMedChem.

A fast selenium derivatization strategy for crystallization and phasing of RNA structures.

C. Schulze-Briese, A. Serganov, R. Micura, 2009, RNA.

Polymorphism of bulged-out residues in HIV-1 RNA DIS kissing complex and structure comparison with solution studies.

Philippe Dumas, Eric Ennifar, P. Dumas, 2006, Journal of molecular biology.

HIV-1 RNA Dimerization Initiation Site Is Structurally Similar to the Ribosomal A Site and Binds Aminoglycoside Antibiotics* 210

Philippe Dumas, Chantal Ehresmann, Bernard Ehresmann, 2003, The Journal of Biological Chemistry.

Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site

Philippe Dumas, Chantal Ehresmann, Bernard Ehresmann, 2001, Nature Structural Biology.

Structural requirements for nucleocapsid protein-mediated dimerization of avian leukosis virus RNA.

D. Ficheux, J. Darlix, P. Fossé, 2007, Journal of molecular biology.

X-ray crystallography as a tool for mechanism-of-action studies and drug discovery.

Eric Ennifar, E. Ennifar, 2013, Current pharmaceutical biotechnology.

Efficient production of protein complexes in mammalian cells using a poxvirus vector

M. Ruff, J. Batisse, R. Drillien, 2022, PloS one.

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

Eric Westhof, Alexis Autour, Michael Ryckelynck, 2017, RNA.

Asymmetric dimerization in a transcription factor superfamily is promoted by allosteric interactions with DNA

Gabriel V. Markov, D. Moras, B. Klaholz, 2023, Nucleic acids research.

An efficient method for solving RNA structures: MAD phasing by replacing magnesium with zinc.

P. Dumas, E. Ennifar, P. Walter, 2001, Acta crystallographica. Section D, Biological crystallography.

The crystal structure of UUCG tetraloop.

A. Serganov, C. Ehresmann, P. Dumas, 2000, Journal of molecular biology.

Detection and treatment of twinning: an improvement and new results.

E. Ennifar, P. Walter, P. Dumas, 1999, Acta Crystallographica Section D: Biological Crystallography.

HuR interacts with human immunodeficiency virus type 1 reverse transcriptase, and modulates reverse transcription in infected cells.

J. Rain, R. Benarous, J. Lemay, 2008 .

HuR interacts with human immunodeficiency virus type 1 reverse transcriptase, and modulates reverse transcription in infected cells.

J. Rain, R. Benarous, J. Lemay, 2008, Retrovirology.

AKAP149 binds to HIV-1 reverse transcriptase and is involved in the reverse transcription.

J. Rain, G. Maga, R. Benarous, 2008, Journal of molecular biology.

Synthesis of a neamine dimer targeting the dimerization initiation site of HIV-1 RNA.

P. Dumas, R. Marquet, J. Paillart, 2007, Organic letters.

Silver-wired DNA

P. Auffinger, E. Ennifar, 2017, Nature Chemistry.

Thermodynamics of HIV-1 reverse transcriptase in action elucidates the mechanism of action of non-nucleoside inhibitors.

R. Micura, P. Dumas, G. Bec, 2013, Journal of the American Chemical Society.