(Q40703747)

22 September 2017

Aromatic N versus aromatic F: bioisosterism discovered in RNA base pairing interactions leads to a novel class of universal base analogs (English)

1 reference

22 September 2017

Alrun N Koller

1

1 reference

22 September 2017

Jelena Bozilovic

series ordinal

2

1 reference

22 September 2017

Joachim W Engels

series ordinal

3

1 reference

22 September 2017

Holger Gohlke

series ordinal

4

1 reference

22 September 2017

15 January 2010

1 reference

22 September 2017

Nucleic Acids Research

1 reference

22 September 2017

38

1 reference

22 September 2017

9

1 reference

22 September 2017

3133-3146

1 reference

Experimental Measurement of Aromatic Stacking Affinities in the Context of Duplex DNA

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Contributions of stacking, preorganization, and hydrogen bonding to the thermodynamic stability of duplexes between RNA and 2'-O-methyl RNA with locked nucleic acids

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Understanding organofluorine chemistry. An introduction to the C-F bond

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Fluorine in pharmaceuticals: looking beyond intuition

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

The difluorotoluene debate--a decade later

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

The Amber biomolecular simulation programs

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Fluorine in crystal engineering--"the little atom that could".

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Influence of a fluorobenzene nucleobase analogue on the conformational flexibility of RNA studied by molecular dynamics simulations

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Organic fluorine: odd man out.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

A fluorine scan of thrombin inhibitors to map the fluorophilicity/fluorophobicity of an enzyme active site: evidence for C-F...C=O interactions

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Hydrogen bridges in crystal engineering: interactions without borders

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

C-F...H-C hydrogen bonds in ribonucleic acids

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Survey and summary: The applications of universal DNA base analogues

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

The G x U wobble base pair. A fundamental building block of RNA structure crucial to RNA function in diverse biological systems

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Crystal structure of acceptor stem of tRNA(Ala) from Escherichia coli shows unique G.U wobble base pair at 1.16 A resolution

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Synthesis and properties of oligonucleotides containing 2'-deoxynebularine and 2'-deoxyxanthosine

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Guanosine binding required for cyclization of the self-splicing intervening sequence ribonucleic acid from Tetrahymena thermophila

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

The contribution of DNA single-stranded order to the thermodynamics of duplex formation

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

How many base-pairs per turn does DNA have in solution and in chromatin? Some theoretical calculations

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Thermodynamics of base pairing

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Hydrogen bonding and stacking of DNA bases: a review of quantum-chemical ab initio studies.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Aromatic Nonpolar Nucleosides as Hydrophobic Isosteres of Pyrimidine and Purine Nucleosides

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Nature of bonding in nine planar hydrogen-bonded adenine...thymine base pairs

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Quantum-chemical ab initio study on the adenine-difluorotoluene complex--a mimic for the adenine-thymine base pair.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Determinants of the unexpected stability of RNA fluorobenzene self pairs

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Florobenzene as artificial nucleobases-base pairing and stacking interactions

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Synthesis of 2'-aminoalkyl-substituted fluorinated nucleobases and their influence on the kinetic properties of hammerhead ribozymes

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Fluorine interactions at the thrombin active site: protein backbone fragments H-C(alpha)-C=O comprise a favorable C-F environment and interactions of C-F with electrophiles

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

A fluorine scan of the phenylamidinium needle of tricyclic thrombin inhibitors: effects of fluorine substitution on pKa and binding affinity and evidence for intermolecular C-F...CN interactions

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Selective pairing of polyfluorinated DNA bases

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Synthesis of Modified RNA-Oligonucleotides for Structural Investigations

19 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2875010

Organic Fluorine Hardly Ever Accepts Hydrogen Bonds

19 August 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

A Second Generation Force Field for the Simulation of Proteins, Nucleic Acids, and Organic Molecules

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

Revised TIPS for simulations of liquid water and aqueous solutions

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

Particle mesh Ewald: An N⋅log(N) method for Ewald sums in large systems

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

van der Waals Volumes and Radii

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

Molecular dynamics with coupling to an external bath

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

Adenine⋯2,4-difluorotoluene (modified base) pair: potential and free-energy surfaces

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

Accurate Interaction Energies of Hydrogen-Bonded Nucleic Acid Base Pairs

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKP1237

1-deoxy-1-(4-fluorophenyl)-beta-D-ribofuranose, its hemihydrate, and 1-deoxy-1-(2,4-difluorophenyl)-beta-D-ribofuranose: structural evidence for intermolecular C-H...F-C interactions

21 January 2018

1 reference

12 December 2020

Mimicking the Structure and Function of DNA: Insights into DNA Stability and Replication

1 reference

12 December 2020

Stability of XGCGCp, GCGCYp, and XGCGCYp helixes: an empirical estimate of the energetics of hydrogen bonds in nucleic acids

1 reference

12 December 2020

Improved Syntheses of 3H,5H-Pyrrolo[3,2-d]pyrimidines

1 reference

12 December 2020

Principles of RNA Base Pairing: Structures and Energies of the Trans Watson−Crick/Sugar Edge Base Pairs

1 reference

12 December 2020

Non-Watson−Crick Base Pairing in RNA. Quantum Chemical Analysis of the cis Watson−Crick/Sugar Edge Base Pair Family

1 reference

12 December 2020

Interaction and solvation energies of nonpolar DNA base analogues and their role in polymerase insertion fidelity

1 reference

12 December 2020

Efficient Monte Carlo methods for the computer simulation of biological molecules

1 reference

12 December 2020

A Weak Attractive Interaction between Organic Fluorine and an Amide Group

1 reference

12 December 2020

The hydration and solvent polarization effects of nucleotide bases

1 reference

12 December 2020

The roles of hydrogen bonding and sterics in RNA interference

1 reference

12 December 2020

Hydration of nucleic bases in dilute aqueous solutions. Apparent molar adiabatic and isothermal compressibilities, apparent molar volumes and their temperature slopes at 25 degrees C

1 reference

12 December 2020

ParaFrag--an approach for surface-based similarity comparison of molecular fragments

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKP1237

1 reference

22 September 2017

1 reference

22 September 2017

PubMed publication ID

20081201

1 reference