The role of N7 protonation of guanine in determining the structure, stability and function of RNA base pairs. (Q50934018)

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24 February 2020

title

The role of N7 protonation of guanine in determining the structure, stability and function of RNA base pairs (English)

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24 February 2020

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24 February 2020

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24 February 2020

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24 February 2020

Sohini Bhattacharya

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24 February 2020

Dhananjay Bhattacharyya

series ordinal

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24 February 2020

language of work or name

English

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publication date

18 September 2015

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Physical Chemistry Chemical Physics

24 February 2020

published in

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24 February 2020

volume

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issue

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24 February 2020

page(s)

26249-26263

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Charged Nucleobases and Their Potential for RNA Catalysis

24 February 2020

cites work

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Calculation of pKa values of nucleobases and the guanine oxidation products guanidinohydantoin and spiroiminodihydantoin using density functional theory and a polarizable continuum model.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Catalytic roles for proton transfer and protonation in ribozymes

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

H-DNA and related structures.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Do natural DNA triple-helical structures occur and function in vivo?

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

A tetrameric DNA structure with protonated cytosine.cytosine base pairs

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

The fragile X chromosome (GCC) repeat folds into a DNA tetraplex at neutral pH.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Understanding the molecular basis of fragile X syndrome

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

General acid-base catalysis in the mechanism of a hepatitis delta virus ribozyme

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Solution structure of loop A from the hairpin ribozyme from tobacco ringspot virus satellite

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Analyzing your complexes: structure of the quinol-fumarate reductase respiratory complex

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Driving forces for nucleic acid pK(a) shifting in an A(+).C wobble: effects of helix position, temperature, and ionic strength

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Stabilization of the anticodon stem-loop of tRNALys,3 by an A+-C base-pair and by pseudouridine

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

A CA(+) pair adjacent to a sheared GA or AA pair stabilizes size-symmetric RNA internal loops

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Feasibility of occurrence of different types of protonated base pairs in RNA: a quantum chemical study

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Linkage between proton binding and folding in RNA: implications for RNA catalysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Non-canonical base pairs and higher order structures in nucleic acids: crystal structure database analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Protonation of base pairs in RNA: context analysis and quantum chemical investigations of their geometries and stabilities.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Quantum chemical studies of nucleic acids: can we construct a bridge to the RNA structural biology and bioinformatics communities?

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

How to understand quantum chemical computations on DNA and RNA systems? A practical guide for non-specialists

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Eukaryotic DNA polymerases alpha, beta and epsilon incorporate guanine opposite 2,2,4-triamino-5(2H)-oxazolone

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Comparison of intrinsic stacking energies of ten unique dinucleotide steps in A-RNA and B-DNA duplexes. Can we determine correct order of stability by quantum-chemical calculations?

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Energetically important C-H···F-C pseudohydrogen bonding in water: evidence and application to rational design of oligonucleotides with high binding affinity.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Direct measurement of a pK(a) near neutrality for the catalytic cytosine in the genomic HDV ribozyme using Raman crystallography

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Direct Raman measurement of an elevated base pKa in the active site of a small ribozyme in a precatalytic conformation

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Mg2+ binding and archaeosine modification stabilize the G15 C48 Levitt base pair in tRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Frequency and effect of the binding of Mg2+, Mn2+, and Co2+ ions on the guanine base in Watson-Crick and reverse Watson-Crick base pairs

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

RNABP COGEST: a resource for investigating functional RNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

RNA structure, not sequence, determines the 5' splice-site specificity of a group I intron

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Two group I introns with a C.G basepair at the 5' splice-site instead of the very highly conserved U.G basepair: is selection post-translational?

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

A critical base pair in k-turns that confers folding characteristics and correlates with biological function

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Structure of a class II preQ1 riboswitch reveals ligand recognition by a new fold

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

HD-RNAS: An Automated Hierarchical Database of RNA Structures

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Femtosecond stimulated Raman spectroscopy of the cyclobutane thymine dimer repair mechanism: a computational study

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Can TD-DFT calculations accurately describe the excited states behavior of stacked nucleobases? The cytosine dimer as a test case

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

On the Binding Strength Sequence for Nucleic Acid Bases and C60 with Density Functional and Dispersion-Corrected Density Functional Theories: Whether C60 Could Protect Nucleic Acid Bases from Radiation-Induced Damage

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

The electronic spectra and the H-bonding pattern of the sulfur and selenium substituted guanines

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Self‐Consistent Molecular‐Orbital Methods. IX. An Extended Gaussian‐Type Basis for Molecular‐Orbital Studies of Organic Molecules

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Gaussian basis sets for use in correlated molecular calculations. I. The atoms boron through neon and hydrogen

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

The calculation of small molecular interactions by the differences of separate total energies. Some procedures with reduced errors

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Energies, structures, and electronic properties of molecules in solution with the C-PCM solvation model.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Quantum Calculation of Molecular Energies and Energy Gradients in Solution by a Conductor Solvent Model

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

COSMO: a new approach to dielectric screening in solvents with explicit expressions for the screening energy and its gradient

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

A quantum theory of molecular structure and its applications

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

21 January 2018

Natural hybrid orbitals

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Quantum chemical studies of structures and binding in noncanonical RNA base pairs: the trans Watson-Crick:Watson-Crick family

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Molecular switching behavior in isosteric DNA base pairs

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Sequence and conformation effects on ionization potential and charge distribution of homo-nucleobase stacks using M06-2X hybrid density functional theory calculations

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Nucleus-Independent Chemical Shifts: A Simple and Efficient Aromaticity Probe

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

VMD: visual molecular dynamics

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

A mechanistic perspective on the chemistry of DNA repair glycosylases

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Toward a detailed understanding of base excision repair enzymes: transition state and mechanistic analyses of N-glycoside hydrolysis and N-glycoside transfer

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Effects of ionization, metal cationization and protonation on 2'-deoxyguanosine: changes on sugar puckering and stability of the N-glycosidic bond

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Effects of nucleophile, oxidative damage, and nucleobase orientation on the glycosidic bond cleavage in deoxyguanosine

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Glycosidic bond cleavage in deoxynucleotides: effects of solvent and the DNA phosphate backbone in the computational model

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Higher order structural effects stabilizing the reverse Watson-Crick Guanine-Cytosine base pair in functional RNAs.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Detailed molecular model for transfer ribonucleic acid

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Three-Dimensional Tertiary Structure of Yeast Phenylalanine Transfer RNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Alternative design of a tRNA core for aminoacylation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Accurate energies of hydrogen bonded nucleic acid base pairs and triplets in tRNA tertiary interactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Structure and energy of non-canonical basepairs: comparison of various computational chemistry methods with crystallographic ensembles

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Trans Hoogsteen/sugar edge base pairing in RNA. Structures, energies, and stabilities from quantum chemical calculations

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Unique tertiary and neighbor interactions determine conservation patterns of Cis Watson-Crick A/G base-pairs

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

On the role of the cis Hoogsteen:sugar-edge family of base pairs in platforms and triplets-quantum chemical insights into RNA structural biology

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1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

A structural database for k-turn motifs in RNA.

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1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Molecular basis of box C/D RNA-protein interactions; cocrystal structure of archaeal L7Ae and a box C/D RNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Joint X-ray and NMR refinement of the yeast L30e-mRNA complex

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Recurrent structural RNA motifs, Isostericity Matrices and sequence alignments

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1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

The emerging field of RNA nanotechnology

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

In vitro selection of self-cleaving RNAs with a low pH optimum

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Primordial soup or vinaigrette: did the RNA world evolve at acidic pH?

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1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Design of Density Functionals by Combining the Method of Constraint Satisfaction with Parametrization for Thermochemistry, Thermochemical Kinetics, and Noncovalent Interactions

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1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Evidence of σ- and π-Dimerization in a Series of Phenalenyls

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1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Density Functionals for Noncovalent Interaction Energies of Biological Importance

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1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

Interaction of DNA Base Pairs with Various Metal Cations (Mg2+, Ca2+, Sr2+, Ba2+, Cu+, Ag+, Au+, Zn2+, Cd2+, and Hg2+): Nonempirical ab Initio Calculations on Structures, Energies, and Nonadditivity of the Interaction

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC5CP04894J

21 January 2018

Identifiers

DOI

10.1039/C5CP04894J

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26382322%20AND%20SRC:MED&resulttype=core&format=json

24 February 2020

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