(Q34986920)

5 August 2017

title

Classification and energetics of the base-phosphate interactions in RNA (English)

1 reference

5 August 2017

4

Jesse Stombaugh

1 reference

5 August 2017

Craig L Zirbel

1

1 reference

5 August 2017

Judit E Sponer

series ordinal

2

1 reference

5 August 2017

Jiri Sponer

series ordinal

3

1 reference

5 August 2017

Neocles B Leontis

series ordinal

5

1 reference

5 August 2017

language of work or name

English

0 references

publication date

14 June 2009

1 reference

5 August 2017

published in

Nucleic Acids Research

1 reference

5 August 2017

volume

37

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5 August 2017

issue

15

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5 August 2017

page(s)

4898-4918

1 reference

Frequency and isostericity of RNA base pairs

5 August 2017

cites work

1 reference

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Molecular dynamics suggest multifunctionality of an adenine imino group in acid-base catalysis of the hairpin ribozyme.

8 July 2018

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The UA_handle: a versatile submotif in stable RNA architectures

8 July 2018

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Nature and magnitude of aromatic stacking of nucleic acid bases

8 July 2018

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FR3D: finding local and composite recurrent structural motifs in RNA 3D structures

8 July 2018

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Leading RNA tertiary interactions: structures, energies, and water insertion of A-minor and P-interactions. A quantum chemical view.

8 July 2018

1 reference

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A comparison of vanadate to a 2'-5' linkage at the active site of a small ribozyme suggests a role for water in transition-state stabilization

8 July 2018

1 reference

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Structure of the 70S ribosome complexed with mRNA and tRNA

8 July 2018

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Sugar edge/sugar edge base pairs in RNA: stabilities and structures from quantum chemical calculations

8 July 2018

1 reference

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The building blocks and motifs of RNA architecture

8 July 2018

1 reference

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Structural and evolutionary classification of G/U wobble basepairs in the ribosome

8 July 2018

1 reference

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Molecular dynamics simulations of sarcin-ricin rRNA motif.

8 July 2018

1 reference

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Structures of the bacterial ribosome at 3.5 A resolution

8 July 2018

1 reference

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Evolutionary profiles from the QR factorization of multiple sequence alignments

8 July 2018

1 reference

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The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema

8 July 2018

1 reference

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A guide to ions and RNA structure

8 July 2018

1 reference

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The European ribosomal RNA database

8 July 2018

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8 July 2018

Analysis of RNA motifs

1 reference

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Non-Watson-Crick basepairing and hydration in RNA motifs: molecular dynamics of 5S rRNA loop E.

8 July 2018

1 reference

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Transition state stabilization by a catalytic RNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Electronic properties, hydrogen bonding, stacking, and cation binding of DNA and RNA bases

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Geometric nomenclature and classification of RNA base pairs

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

An extended structural signature for the tRNA anticodon loop

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Structure of the 30S ribosomal subunit

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Crystal structure of the ribosomal RNA domain essential for binding elongation factors

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

A common motif organizes the structure of multi-helix loops in 16 S and 23 S ribosomal RNAs

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Metals, motifs, and recognition in the crystal structure of a 5S rRNA domain

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Proton exchange and base-pair kinetics of poly(rA).poly(rU) and poly(rI).poly(rC).

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Structural domains of transfer RNA molecules

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

The roles of ribosomal proteins in the structure assembly, and evolution of the large ribosomal subunit

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Anion binding to nucleic acids

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

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

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Motif prediction in ribosomal RNAs Lessons and prospects for automated motif prediction in homologous RNA molecules

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

GNRA tetraloops make a U-turn

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2731888

Structure, Energetics, and Dynamics of the Nucleic Acid Base Pairs: NonempiricalAb InitioCalculations

26 October 2018

1 reference

12 December 2020

Accurate Interaction Energies of Hydrogen-Bonded Nucleic Acid Base Pairs

1 reference

12 December 2020

Studies of base pair kinetics by NMR measurement of proton exchange

1 reference

12 December 2020

Rapid chemical probing of conformation in 16 S ribosomal RNA and 30 S ribosomal subunits using primer extension

1 reference

12 December 2020

The Mg2+ binding sites of the 5S rRNA loop E motif as investigated by molecular dynamics simulations

1 reference

12 December 2020

Theoretical Methods for the Description of the Solvent Effect in Biomolecular Systems

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKP468

1 reference

5 August 2017

1 reference

5 August 2017

1 reference