Pascal Auffinger: search on Z-Library

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1

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

D'Ascenzo, Luigi, Leonarski, Filip, Vicens, Quentin, Auffinger, Pascal

Journal:

Year:

2017

Language:

english

File:

PDF, 1.14 MB

english, 2017

2

RNA solvation: A molecular dynamics simulation perspective

Pascal Auffinger, Eric Westhof

Journal:

Year:

2000

Language:

english

File:

PDF, 747 KB

english, 2000

3

Hydrophobic Groups Stabilize the Hydration Shell of 2′-O-Methylated RNA Duplexes

Pascal Auffinger, Eric Westhof

Journal:

Angewandte Chemie

Year:

2001

Language:

english

File:

PDF, 112 KB

english, 2001

4

Hydrophobic Groups Stabilize the Hydration Shell of 2′-O-Methylated RNA Duplexes

Pascal Auffinger, Eric Westhof

Journal:

Angewandte Chemie International Edition

Year:

2001

Language:

english

File:

PDF, 113 KB

english, 2001

5

A simple test for evaluating the truncation effects in simulations of systems involving charged groups

Pascal Auffinger, David L. Beveridge

Journal:

Chemical Physics Letters

Year:

1995

Language:

english

File:

PDF, 232 KB

english, 1995

6

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

Pascal Auffinger, Eric Westhof

Journal:

Biophysical Chemistry

Year:

2002

Language:

english

File:

PDF, 518 KB

english, 2002

7

Molecular dynamics investigations of hammerhead ribozyme RNA

Thomas Hermann, Pascal Auffinger, E. Westhof

Journal:

European Biophysics Journal

Year:

1998

Language:

english

File:

PDF, 3.07 MB

english, 1998

8

The Mg2+ Binding Sites of the 5S rRNA Loop E Motif as Investigated by Molecular Dynamics Simulations

Pascal Auffinger, Lukasz Bielecki, Eric Westhof

Journal:

Chemistry & Biology

Year:

2003

Language:

english

File:

PDF, 830 KB

english, 2003

9

Nucleic acid solvation: from outside to insight

Pascal Auffinger, Yaser Hashem

Journal:

Current Opinion in Structural Biology

Year:

2007

Language:

english

File:

PDF, 1.72 MB

english, 2007

10

Anion Binding to Nucleic Acids

Pascal Auffinger, Lukasz Bielecki, Eric Westhof

Journal:

Year:

2004

Language:

english

File:

PDF, 1004 KB

english, 2004

11

RNA hydration: three nanoseconds of multiple molecular dynamics simulations of the solvated tRNAAsp anticodon hairpin

Pascal Auffinger, Eric Westhof

Journal:

Journal of Molecular Biology

Year:

1997

Language:

english

File:

PDF, 556 KB

english, 1997

12

Rules governing the orientation of the 2′-hydroxyl group in RNA

Pascal Auffinger, Eric Westhof

Journal:

Journal of Molecular Biology

Year:

1997

Language:

english

File:

PDF, 2.23 MB

english, 1997

13

Singly and Bifurcated Hydrogen-bonded Base-pairs in tRNA Anticodon Hairpins and Ribozymes

Pascal Auffinger, Eric Westhof

Journal:

Journal of Molecular Biology

Year:

1999

Language:

english

File:

PDF, 624 KB

english, 1999

14

Water and ion binding around RNA and DNA (C,G) oligomers

Pascal Auffinger, Eric Westhof

Journal:

Journal of Molecular Biology

Year:

2000

Language:

english

File:

PDF, 1.06 MB

english, 2000

15

Water and ion binding around r(UpA)12and d(TpA)12Oligomers - comparison with RNA and DNA (CpG)12 duplexes

Pascal Auffinger, Eric Westhof

Journal:

Journal of Molecular Biology

Year:

2001

Language:

english

File:

PDF, 783 KB

english, 2001

16

Symmetric K+ and Mg2+ Ion-binding Sites in the 5 S rRNA Loop E Inferred from Molecular Dynamics Simulations

Pascal Auffinger, Lukasz Bielecki, Eric Westhof

Journal:

Journal of Molecular Biology

Year:

2004

Language:

english

File:

PDF, 2.55 MB

english, 2004

17

A short guide for molecular dynamics simulations of RNA systems

Yaser Hashem, Pascal Auffinger

Journal:

Year:

2009

Language:

english

File:

PDF, 256 KB

english, 2009

18

Calculations of nucleic acid conformations

Shirley Louise-May, Pascal Auffinger, Eric Westhof

Journal:

Current Opinion in Structural Biology

Year:

1996

Language:

english

File:

PDF, 1.09 MB

english, 1996

19

Simulations of the molecular dynamics of nucleic acids

Pascal Auffinger, Eric Westhof

Journal:

Current Opinion in Structural Biology

Year:

1998

Language:

english

File:

PDF, 1.10 MB

english, 1998

20

Spontaneous Formation of KCl Aggregates in Biomolecular Simulations: A Force Field Issue?

Auffinger, Pascal, Cheatham, Thomas E., Vaiana, Andrea C.

Journal:

Journal of Chemical Theory and Computation

Year:

2007

Language:

english

File:

PDF, 273 KB

english, 2007

21

Molecular Dynamics Simulations of Solvated Yeast tRNAAsp

Auffinger, Pascal, Louise-May, Shirley, Westhof, Eric

Journal:

Biophysical Journal

Year:

1999

Language:

english

File:

PDF, 611 KB

english, 1999

22

Protein Capsules Assembled via Isobutyramide Grafts: Sequential Growth, Biofunctionalization, and Cellular Uptake

Mertz, Damien, Cui, Jiwei, Yan, Yan, Devlin, Glyn, Chaubaroux, Christophe, Dochter, Alexandre, Alles, Roxane, Lavalle, Philippe, Voegel, Jean Claude, Blencowe, Anton, Auffinger, Pascal, Caruso, Frank

Journal:

Year:

2012

Language:

english

File:

PDF, 1.47 MB

english, 2012

23

Hydration of RNA Base Pairs

Auffinger, Pascal, Westhof, Eric

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

1998

Language:

english

File:

PDF, 993 KB

english, 1998

24

Multiple Molecular Dynamics Simulations of the Anticodon Loop of tRNAAsp in Aqueous Solution with Counterions

Auffinger, Pascal, Louise-May, Shirley, Westhof, Eric

Journal:

Journal of the American Chemical Society

Year:

1995

Language:

english

File:

PDF, 824 KB

english, 1995

25

Molecular Dynamics Simulations of the Anticodon Hairpin of tRNA Asp : Structuring Effects of C−H···O Hydrogen Bonds and of Long-Range Hydration Forces

Auffinger, Pascal, Louise-May, Shirley, Westhof, Eric

Journal:

Journal of the American Chemical Society

Year:

1996

Language:

english

File:

PDF, 232 KB

english, 1996

26

Dinucleotide TpT and Its 2‘- O -Me Analogue Possess Different Backbone Conformations and Flexibilities but Similar Stacked Geometries

Santini, Guillaume P. H., Pakleza, Christophe, Auffinger, Pascal, Moriou, Céline, Favre, Alain, Clivio, Pascale, Cognet, Jean A. H.

Journal:

Journal of Physical Chemistry B

Year:

2007

Language:

english

File:

PDF, 623 KB

english, 2007

27

Hydration of C?H groups in tRNA

Auffinger, Pascal, Louise-May, Shirley, Westhof, Eric

Journal:

Faraday Discussions

Year:

1996

Language:

english

File:

PDF, 1.77 MB

english, 1996

28

A comprehensive classification and nomenclature of carboxyl–carboxyl(ate) supramolecular motifs and related catemers: implications for biomolecular systems

D'Ascenzo, Luigi, Auffinger, Pascal

Journal:

Acta Crystallographica Section B Structural Science, Crystal Engineering and Materials

Year:

2015

Language:

english

File:

PDF, 1.36 MB

english, 2015

29

106 Ion-π interactions in biomolecular systems

D’Ascenzo, Luigi, Auffinger, Pascal

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2015

Language:

english

File:

PDF, 445 KB

english, 2015

30

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

Sydow, Dominique, Leonarski, Filip, D’Ascenzo, Luigi, Auffinger, Pascal

Journal:

Journal of Biomolecular Structure and Dynamics

Year:

2015

Language:

english

File:

PDF, 498 KB

english, 2015

31

‘Z-DNA like’ fragments in RNA: a recurring structural motif with implications for folding, RNA/protein recognition and immune response

D'Ascenzo, Luigi, Leonarski, Filip, Vicens, Quentin, Auffinger, Pascal

Journal:

Nucleic Acids Research

Year:

2016

Language:

english

File:

PDF, 5.03 MB

english, 2016

32

Binding of metals to purine N7 nitrogen atoms and implications for nucleic acids: A CSD survey

Leonarski, Filip, D’Ascenzo, Luigi, Auffinger, Pascal

Journal:

Inorganica Chimica Acta

Year:

2016

Language:

english

File:

PDF, 897 KB

english, 2016

33

La démarche émergence du Réseau national de vigilance et de prévention des pathologies professionnelles (rnv3p)

Le Barbier, Mélina, Bonneterre, Vincent, Auffinger, Sandrine, Bensefa-Collas, Lynda, Brunel, Serge, Charbotel, Barbara, Empereur-Bissonnet, Pascal, Esquirol, Yolande, Garnier, Robert, Lapostolle, Anna

Journal:

Archives des Maladies Professionnelles et de l'Environnement

Year:

2016

Language:

french

File:

PDF, 250 KB

french, 2016

34

Mg 2+ ions: do they bind to nucleobase nitrogens?

Leonarski, Filip, D'Ascenzo, Luigi, Auffinger, Pascal

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 5.73 MB

english, 2017

35

Nucleic acid nanomaterials: Silver-wired DNA

Auffinger, Pascal, Ennifar, Eric

Journal:

Nature Chemistry

Year:

2017

Language:

english

File:

PDF, 395 KB

english, 2017

36

Identification of receptors for UNCG and GNRA Z-turns and their occurrence in rRNA

D’Ascenzo, Luigi, Vicens, Quentin, Auffinger, Pascal

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 4.74 MB

english, 2018

37

Nucleobase carbonyl groups are poor Mg 2+ inner-sphere binders but excellent monovalent ion binders – A critical PDB survey

Leonarski, Filip, D'Ascenzo, Luigi, Auffinger, Pascal

Journal:

Year:

2018

Language:

english

File:

PDF, 1.13 MB

english, 2018

38

Comment on “Evaluating Unexpectedly Short Non-covalent Distances in X-ray Crystal Structures of Proteins with Electronic Structure Analysis”

Kruse, Holger, Sponer, Jiri, Auffinger, Pascal

Journal:

Journal of Chemical Information and Modeling

Year:

2019

Language:

english

File:

PDF, 1.57 MB

english, 2019

39

An extended structural signature for the tRNA anticodon loop

AUFFINGER, PASCAL, WESTHOF, ERIC

Journal:

Year:

2001

Language:

english

File:

PDF, 254 KB

english, 2001

40

Short but weak! The ZâDNA loneâpairâ¦ÏÂ conundrum challenges standard carbon van der Waals radii

Kruse, Holger, Mrazikova, Klaudia, D'Ascenzo, Luigi, Sponer, Jiri, Auffinger, Pascal

Journal:

Angewandte Chemie International Edition

Year:

2020

File:

PDF, 1.40 MB

2020

41

Short but Weak: The ZâDNA LoneâPairâââÏ Conundrum Challenges Standard Carbon Van der Waals Radii

Kruse, Holger, Mrazikova, Klaudia, D'Ascenzo, Luigi, Sponer, Jiri, Auffinger, Pascal

Journal:

Angewandte Chemie

Year:

2020

File:

PDF, 1.40 MB

2020