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2018

Sakamoto T, Ennifar E, Nakamura Y

Thermodynamic study of aptamers binding to their target proteins Journal Article

In: Biochimie, vol. 145, pp. 91-97, 2018, ISBN: 29054802.

Abstract | Links | BibTeX | Tags: Aptamer Conformation Interaction Isothermal titration calorimetry Thermodynamics, ENNIFAR, Unité ARN

Marek M, Shaik T B, Heimburg T, Chakrabarti A, Lancelot J, Morales E Ramos, Veiga C Da, Kalinin D V, Melesina J, Robaa D, Schmidtkunz K, Suzuki T, Holl R, Ennifar E, Pierce R, Jung M, Sippl W, Romier C

Characterization of histone deacetylase 8 (HDAC8) selective inhibition reveals specific active site structural and functional determinants Journal Article

In: J Med Chem, vol. 61, no. 22, pp. 10000-10016, 2018, ISBN: 30347148.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Rozov A, Wolff P, Grosjean H, Yusupov M, Yusupova G, Westhof E

Tautomeric G*U pairs within the molecular ribosomal grip and fidelity of decoding in bacteria Journal Article

In: Nucleic Acids Res, vol. 46, no. 14, pp. 7425-7435, 2018, ISBN: 29931292.

Abstract | Links | BibTeX | Tags: ARN-MS, ENNIFAR, Unité ARN, WESTHOF

Dubois N, Khoo K K, Ghossein S, Seissler T, Wolff P, McKinstry W J, Mak J, Paillart J C, Marquet R, Bernacchi S

The C-terminal p6 domain of the HIV-1 Pr55Gag precursor is required for specific binding to the genomic RNA. Journal Article

In: RNA Biol, vol. 15, no. 7, pp. 923-936, 2018, ISBN: 29954247.

Abstract | Links | BibTeX | Tags: ENNIFAR, HIV-1 Pr55Gag RNA-protein binding specificity fluorescence spectroscopy genomic RNA p6 domain, MARQUET, PAILLART, Unité ARN

Pellegrino S, Demeshkina N, Mancera-Martinez E, Melnikov S, Simonetti A, Myasnikov A, Yusupov M, Yusupova G, Hashem Y

Structural insights into the role of diphthamide on elongation factor 2 in messenger RNA reading frame maintenance Journal Article

In: J Mol Biol, vol. 430, no. 17, pp. 2677-2687, 2018, ISBN: 29886014.

Abstract | Links | BibTeX | Tags: ENNIFAR, Ribosome translocation cryo-EM diphthamide eEF2 reading-frame maintenance, Unité ARN

2017

Leonarski F, D'Ascenzo L, Auffinger P

Mg2+ ions: do they bind to nucleobase nitrogens? Journal Article

In: Nucleic Acids Res, vol. 45, no. 2, pp. 987-1004, 2017, ISBN: 27923930.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Riml C, Lusser A, Ennifar E, Micura R

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

In: J Org Chem, vol. 82, no. 15, pp. 7939-7945, 2017, ISBN: 28707898.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Fernandez-Millan P, Autour A, Ennifar E, Westhof E, Ryckelynck M

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

In: RNA, vol. 23, no. 12, pp. 1788-1795, 2017, ISBN: 28939697.

Abstract | Links | BibTeX | Tags: DFHBI Spinach crystal structure fluorescence fluorogenic RNA aptamer, ENNIFAR, RYCKELYNCK, Unité ARN, WESTHOF

Auffinger P, Ennifar E

Nucleic acid nanomaterials: Silver-wired DNA Journal Article

In: Nat Chem, vol. 9, no. 10, pp. 932-934, 2017, ISBN: 28937666.

Links | BibTeX | Tags: ENNIFAR, Unité ARN

Wolff P, Veiga C Da, Ennifar E, Bec G, Guichard G, Burnouf D, Dumas P

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

In: J Am Soc Mass Spectrom, vol. 28, no. 2, pp. 347-357, 2017, ISBN: 27957716.

Abstract | Links | BibTeX | Tags: ARN-MS, DNA-polymerase processivity rings ESI-MS ITC Kd determination, ENNIFAR, Unité ARN

Mancera-Martinez E, Querido J Brito, Valasek L S, Simonetti A, Hashem Y

ABCE1: A special factor that orchestrates translation at the crossroad between recycling and initiation. Journal Article

In: RNA Biol, vol. 14, no. 10, pp. 1279-1285, 2017, ISBN: 28498001.

Abstract | Links | BibTeX | Tags: ABCE1 cryo-EM recycling ribosome translation, ENNIFAR, Unité ARN

D'Ascenzo L, Leonarski F, Vicens Q, Auffinger P

Revisiting GNRA and UNCG folds: U-turns versus Z-turns in RNA hairpin loops. Journal Article

In: RNA, vol. 23, no. 3, pp. 259-269, 2017, ISBN: 27999116.

Abstract | Links | BibTeX | Tags: ENNIFAR, RNA folding RNA motif structure prediction tRNA anticodon tetraloop, Unité ARN

Khusainov I, Vicens Q, Ayupov R, Usachev K, Myasnikov A, Simonetti A, Validov S, Kieffer B, Yusupova G, Yusupov M, Hashem Y

Structures and dynamics of hibernating ribosomes from Staphylococcus aureus mediated by intermolecular interactions of HPF. Journal Article

In: EMBO J, vol. 36, no. 14, pp. 2073-2087, 2017, ISBN: 28645916.

Abstract | Links | BibTeX | Tags: cryo-electron microscopy hibernation pathogen ribosome, ENNIFAR, Unité ARN

2016

Auffinger P, D'Ascenzo L, Ennifar E

Sodium and Potassium Interactions with Nucleic Acids Book Chapter

In: Sigel, A; Sigel, H; Sigel, R (Ed.): The Alkali Metal Ions: Their Role for Life, vol. 16, pp. 167-201, Springer, 2016, ISBN: 26860302.

Abstract | Links | BibTeX | Tags: DNA Hydration K+ Metal binding Molecular dynamics simulations Monovalent ions Na+·NMR Potassium RNA Sodium Solvation X-ray crystallography, ENNIFAR, Unité ARN

Urzhumtsev A, Urzhumtseva L, Baumann U

Helical Symmetry of Nucleic Acids: Obstacle or Help in Structure Solution? Book Chapter

In: Ennifar, E (Ed.): Nucleic Acid Crystallography: Methods and Protocols, vol. 1320, pp. 259-267, Humana Press, NY, 2016, ISBN: 26227048.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Latrick C M, Marek M, Ouararhni K, Papin C, Stoll I, Ignatyeva M, Obri A, Ennifar E, Dimitrov S, Romier C, Hamiche A

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

In: Nat Struct Mol Biol, vol. 23, no. 4, pp. 309-316, 2016, ISBN: 26974126.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Guedich S, Puffer-Enders B, Baltzinger M, Hoffmann G, Veiga C Da, Jossinet F, Thore S, Bec G, Ennifar E, Burnouf D, Dumas P

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

In: RNA Biol, vol. 13, no. 4, pp. 373-390, 2016, ISBN: 26932506.

Abstract | Links | BibTeX | Tags: ENNIFAR, Kinetic Regulation kinITC pyrophosphate riboswitches thiamine, LESCURE, Unité ARN

Ennifar E (Ed.)

Nucleic Acid Crystallography: Methods and Protocols Book

Humana Press, New York, NY, 2016.

Abstract | BibTeX | Tags: ENNIFAR, Unité ARN

Dumas P, Ennifar E, Veiga C Da, Bec G, Palau W, Primo C Di, Piñeiro A, Sabin J, Muñoz E, Rial J

Extending ITC to Kinetics with kinITC. Journal Article

In: Methods Enzymol, vol. 567, pp. 157-180, 2016, ISBN: 26794354.

Abstract | Links | BibTeX | Tags: Biological calorimetry Equilibration time curve ITC Kinetics Microcalorimetry kinITC, ENNIFAR, Unité ARN

Veiga C Da, Mezher J, Dumas P, Ennifar E

Isothermal Titration Calorimetry: Assisted Crystallization of RNA-Ligand Complexes Book Chapter

In: Ennifar, E (Ed.): Nucleic Acid Crystallography: Methods and Protocols, vol. 1320, pp. 127-143, Humana Press, NY, 2016, ISBN: 26227041.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Challier L, Miranda-Castro R, Barbe B, Fave C, Limoges B, Peyrin E, Ravelet C, Fiore E, Labbé P, Coche-Guérente L, Ennifar E, Bec G, Dumas P, Mavré F, Noël V

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. Journal Article

In: Anal Chem, vol. 88, no. 23, pp. 11963-11971, 2016, ISBN: 27934108.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

D'Ascenzo L, Leonarski F, Vicens Q, Auffinger P

'Z-DNA like' fragments in RNA: a recurring structural motif with implications for folding, RNA/protein recognition and immune response. Journal Article

In: Nucleic Acids Res, vol. 44, no. 12, pp. 5944-5956, 2016, ISBN: 27151194.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

2015

Ramirez J, Recht R, Charbonnier S, Ennifar E, Atkinson R A, Travé G, Nominé Y, Kieffer B

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

In: Biochemistry, vol. 54, no. 6, pp. 1327-1337, 2015, ISBN: 25590897.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Koch M, Flür S, Kreutz C, Ennifar E, Micura R, Polacek N

Role of a ribosomal RNA phosphate oxygen during the EF-G-triggered GTP hydrolysis. Journal Article

In: Proc Natl Acad Sci U S A, vol. 112, no. 20, pp. E2561-2568, 2015, ISBN: 25941362.

Abstract | Links | BibTeX | Tags: ENNIFAR, RNA solid-phase synthesis methylphosphonate modification protein biosynthesis tRNA translocation, Unité ARN

Sydow D, Leonarski F, D'Ascenzo L, Auffinger P

105 Stabilization effects induced by modified nucleotides in tRNA T-loop motifs. Journal Article

In: J Biomol Struct Dyn, vol. 33, no. Suppl 1, pp. 66, 2015, ISBN: 26103316.

Links | BibTeX | Tags: ENNIFAR, Unité ARN

2014

Mundigala H, Michaux J B, Feig A L, Ennifar E, Rueda D

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

In: Nucleic Acids Res, vol. 42, no. 11, pp. 7281-7289, 2014, ISBN: 24813449.

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Wolff P, Amal I, Oliéric V, Chaloin O, Gygli G, Ennifar E, Lorber B, Guichard G, Wagner J E, Dejaegere A, Burnouf D Y

Differential Modes of Peptide Binding onto Replicative Sliding Clamps from Various Bacterial Origins. Journal Article

In: J Med Chem, vol. 57, no. 18, pp. 7565-7576, 2014, ISBN: 25170813.

Abstract | Links | BibTeX | Tags: ENNIFAR, FRUGIER, Unité ARN

Blond A, Ennifar E, Tisné C, Micouin L

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

In: ChemMedChem, vol. 9, no. 9, pp. 1982-96, 2014, ISBN: 25100137.

Abstract | Links | BibTeX | Tags: DUMAS, ENNIFAR, RNA recognition antiviral agents drug design human immunodeficiency virus new targets, Unité ARN

Košutić M, Jud L, Veiga C Da, Frener M, Fauster K, Kreutz C, Ennifar E, Micura R

Surprising base pairing and structural properties of 2'-trifluoromethylthio-modified ribonucleic acids. Journal Article

In: J Am Chem Soc, vol. 136, no. 18, pp. 6656-63, 2014, ISBN: 24766131.

Abstract | Links | BibTeX | Tags: DUMAS, ENNIFAR, Unité ARN

2013

Neuenfeldt A, Lorber B, Ennifar E, Gaudry A, Sauter C, Sissler M, Florentz C

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

In: Nucleic Acids Research, vol. 41, no. 4, pp. 2698-708, 2013.

Abstract | Links | BibTeX | Tags: ENNIFAR, FRUGIER, SAUTER, Unité ARN

Bec G, Meyer B, Gerard M A, Steger J, Fauster K, Wolff P, Burnouf D, Micura R, Dumas P, Ennifar E

Thermodynamics of HIV-1 Reverse Transcriptase in action elucidates the mechanism of action of non-nucleoside inhibitors. Journal Article

In: J Am Chem Soc, vol. 135, no. 26, pp. 9743-9752, 2013, ISBN: 23742167.

Abstract | Links | BibTeX | Tags: DUMAS, ENNIFAR, Unité ARN

Ennifar E

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

In: Curr Pharm Biotechnol, vol. 14, no. 5, pp. 537-550, 2013, ISBN: ISBN/1389-2010 (Print) 1873-4316 (Online).

Abstract | Links | BibTeX | Tags: Drug design Ligand Molecular mechanism Protein RNA Structural biology X-ray crystallography, DUMAS, ENNIFAR, Unité ARN

Ennifar E, Aslam M W, Strasser P, Hoffmann G, Dumas P, van Delft F L

Structure-guided Discovery of a Novel Aminoglycoside Conjugate Targeting HIV-1 RNA Viral Genome. Journal Article

In: ACS Chem Biol, vol. 8, no. 11, pp. 2509-17, 2013, ISBN: 24015986.

Abstract | Links | BibTeX | Tags: DUMAS, ENNIFAR, Unité ARN

Pendem N, Nelli Y R, Douat C, Fischer L, Laguerre M, Ennifar E, Kauffmann B, Guichard G

Controlling Helix Formation in the γ-Peptide Superfamily: Heterogeneous Foldamers with Urea/Amide and Urea/Carbamate Backbones Journal Article

In: Angew Chem Int Ed Engl, vol. 52, no. 15, pp. 4147-51, 2013, ISBN: 23460200.

Abstract | Links | BibTeX | Tags: DUMAS, ENNIFAR, Unité ARN

Pendem N, Douat C, Claudon P, Laguerre M, Castano S, Desbat B, Cavagnat D, Ennifar E, Kauffmann B, Guichard G

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

In: J Am Chem Soc, vol. 135, no. 12, pp. 4884-92, 2013, ISBN: 23445529, (1520-5126 (Electronic) 0002-7863 (Linking) Journal Article Research Support, Non-U.S. Gov't).

Abstract | Links | BibTeX | Tags: Biomolecular Peptidomimetics/*chemistry Protein Structure, Circular Dichroism Crystallography, ENNIFAR, Fourier Transform Infrared Urea/*analogs & derivatives, Molecular Molecular Conformation Nuclear Magnetic Resonance, Secondary Spectroscopy, Unité ARN, X-Ray Cyclohexylamines/chemistry Models

2012

Fauster K, Hartl M, Santner T, Aigner M, Kreutz C, Bister K, Ennifar E, Micura R

2'-Azido RNA, a versatile tool for chemical biology: synthesis, X-ray structure, siRNA applications, click labeling. Journal Article

In: ACS Chem Biol, vol. 7, no. 3, pp. 581-589, 2012, ISBN: 22273279, (Online: January 24, 2012).

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Burnouf D Y, Ennifar E, Guedich S, Puffer B, Hoffmann G, Bec G, Disdier F, Baltzinger M, Dumas P

kinITC: a new method for obtaining joint thermodynamic and kinetic data by Isothermal Titration Calorimetry. Journal Article

In: J Am Chem Soc, vol. 134, no. 1, pp. 559-565, 2012, ISBN: 22126339, (Publication Date (Web): November 29, 2011).

Abstract | Links | BibTeX | Tags: ENNIFAR, Unité ARN

Freisz S, Mezher J, Hafirassou L, Wolff P, Nomine Y, Romier C, Dumas P, Ennifar E

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

In: RNA Biol, vol. 9, no. 7, pp. 966 - 977, 2012, ISBN: 22767258.

Abstract | Links | BibTeX | Tags: ENNIFAR, HIV Biophysics RNA-protein interactions Microcalorimetry, Unité ARN

2011

Wolff P, Olieric V, Briand J P, Chaloin O, Dejaegere A, Dumas P, Ennifar E, Guichard G, Wagner J, Burnouf D Y

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

In: J Med Chem, vol. 54, no. 13, pp. 4627-4637, 2011, ISSN: 1520-4804 (Electronic) 0022-2623 (Linking), (Wolff, Philippe Olieric, Vincent Briand, Jean Paul Chaloin, Olivier Dejaegere, Annick Dumas, Philippe Ennifar, Eric Guichard, Gilles Wagner, Jerome Burnouf, Dominique Y J Med Chem. 2011 Jul 14;54(13):4627-37. Epub 2011 Jun 9.).

Abstract | Links | BibTeX | Tags: Crystallography, ENNIFAR, Molecular Oligopeptides/*chemical synthesis/chemistry Protein Binding Structure-Activity Relationship Thermodynamics, Unité ARN, X-Ray DNA Polymerase III/*chemistry DNA Polymerase beta/*chemistry Drug Design Escherichia coli/*chemistry Escherichia coli Proteins/*chemistry Ligands Models

Simonetti A, Marzi S, Myasnikov A, Menetret J F, Klaholz B P

Insights into translation initiation and termination complexes and into the polysome architecture Book Chapter

In: Rodnina, M; Wintermeyer, W; Green, R (Ed.): Ribosomes Structures, Function, and Dynamics, pp. 113-128, Springer, Wien, 2011.

Abstract | Links | BibTeX | Tags: ENNIFAR, ROMBY, Unité ARN

Heppell B, Blouin S, Dussault A M, Mulhbacher J, Ennifar E, Penedo J C, Lafontaine D A

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

In: Nat Chem Biol, vol. 7, no. 6, pp. 384-92, 2011, ISBN: ISBN/1552-4469 (Electronic) 1552-4450 (Linking), (Published online 01 May 2011).

Abstract | Links | BibTeX | Tags: Aptamers, Bacterial/*chemistry *Riboswitch S-Adenosylmethionine/*chemistry, DUMAS, ENNIFAR, Nucleotide/chemistry Bacillus subtilis/genetics Binding Sites Crystallography, Unité ARN, X-Ray Ligands Metals Nucleic Acid Conformation RNA

2010

Baussanne I, Bussiere A, Halder S, Ganem-Elbaz C, Ouberai M, Riou M, Paris J M, Ennifar E, Mingeot-Leclercq M P, Decout J L

Synthesis and antimicrobial evaluation of amphiphilic neamine derivatives Journal Article

In: J Med Chem, vol. 53, no. 1, pp. 119-27, 2010, ISBN: 20000576, (1520-4804 (Electronic) 0022-2623 (Linking) Journal Article Research Support, Non-U.S. Gov't).

Abstract | Links | BibTeX | Tags: DUMAS, ENNIFAR, Unité ARN

Ennifar E, Walter P, Dumas P

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

In: Nucleic Acids Res, vol. 38, no. 17, pp. 5807-5811, 2010, ISBN: 20460458, (1362-4962 (Electronic) 0305-1048 (Linking) Journal article).

Abstract | Links | BibTeX | Tags: DUMAS, ENNIFAR, Unité ARN

Fischer L, Claudon P, Pendem N, Miclet E, Didierjean C, Ennifar E, Guichard G

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

In: Angew Chem Int Ed Engl, vol. 49, no. 6, pp. 1067-70, 2010, ISBN: 20039243, (1521-3773 (Electronic) 1433-7851 (Linking) Journal Article Research Support, Non-U.S. Gov't).

Links | BibTeX | Tags: DUMAS, ENNIFAR, Unité ARN

Freisz S, Bec G, Radi M, Wolff P, Crespan E, Angeli L, Dumas P, Maga G, Botta M, Ennifar E

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

In: Angew Chem Int Ed Engl, vol. 49, no. 10, pp. 1805-8, 2010, ISBN: 20135654, (1521-3773 (Electronic) 1433-7851 (Linking) Journal Article Research Support, Non-U.S. Gov't).

Links | BibTeX | Tags: 3-Ring/*chemistry Humans Indoles/*chemistry *Models, Anti-HIV Agents/*chemistry/therapeutic use Crystallography, Biological *Models, DUMAS,