(Q35915633)

11 August 2017

Structural and functional consequences of phosphate-arsenate substitutions in selected nucleotides: DNA, RNA, and ATP. (English)

1 reference

11 August 2017

2

1 reference

11 August 2017

3

Ruth Nussinov

1 reference

11 August 2017

Yu Xu

1

1 reference

PMC publication ID

3337691

11 August 2017

language of work or name

English

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publication date

17 April 2012

1 reference

Journal of Physical Chemistry B

11 August 2017

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11 August 2017

116

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11 August 2017

16

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11 August 2017

4801-4811

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Refinement of the Cornell et al. Nucleic Acids Force Field Based on Reference Quantum Chemical Calculations of Glycosidic Torsion Profiles

11 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Impact of 2'-hydroxyl sampling on the conformational properties of RNA: update of the CHARMM all-atom additive force field for RNA.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Impact of arsenic/phosphorus substitution on the intrinsic conformational properties of the phosphodiester backbone of DNA investigated using ab initio quantum mechanical calculations.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Kinetic consequences of replacing the internucleotide phosphorus atoms in DNA with arsenic

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Arsenate replacing phosphate: alternative life chemistries and ion promiscuity

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

The shape of the DNA minor groove directs binding by the DNA-bending protein Fis

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Bacterial nucleoid-associated proteins, nucleoid structure and gene expression

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Rapid exchange of bound ADP on the Staphylococcus aureus replication initiation protein DnaA.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Global stabilization of rRNA structure by ribosomal proteins S4, S17, and S20.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

A computational framework for mechanical response of macromolecules: application to the salt concentration dependence of DNA bendability

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Probing potential binding modes of the p53 tetramer to DNA based on the symmetries encoded in p53 response elements

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Transfer RNA in the hybrid P/E state: correlating molecular dynamics simulations with cryo-EM data

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Simulating movement of tRNA into the ribosome during decoding

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Scalable molecular dynamics with NAMD

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

ATHENA, ARTEMIS, HEPHAESTUS: data analysis for X-ray absorption spectroscopy using IFEFFIT.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

The structure of bacterial DnaA: implications for general mechanisms underlying DNA replication initiation

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

ATP- and ADP-dnaA protein, a molecular switch in gene regulation.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Why nature chose phosphates

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

All-atom empirical potential for molecular modeling and dynamics studies of proteins

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Optimization of the CHARMM additive force field for DNA: Improved treatment of the BI/BII conformational equilibrium.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Newsmaker interview: Felisa Wolfe-Simon. Discoverer asks for time, patience over arsenic bacteria controversy. Interview by Elizabeth Pennisi.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Microbe gets toxic response

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Structure of the 70S ribosome bound to release factor 2 and a substrate analog provides insights into catalysis of peptide release

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Continuous surface charge polarizable continuum models of solvation. I. General formalism.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Driving ribosome assembly

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Dynamical networks in tRNA:protein complexes

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

S16 throws a conformational switch during assembly of 30S 5' domain

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Side-chain recognition and gating in the ribosome exit tunnel.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Concurrent nucleation of 16S folding and induced fit in 30S ribosome assembly

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Large-scale molecular dynamics simulations of self-assembling systems.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Structural basis for regulation of bifunctional roles in replication initiator protein

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

FACTS: Fast analytical continuum treatment of solvation.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Global ribosome motions revealed with elastic network model

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Ab initio conformational analysis of nucleic acid components: intrinsic energetic contributions to nucleic acid structure and dynamics

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Electrostatics of nanosystems: application to microtubules and the ribosome

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Crystal structure of an IHF-DNA complex: a protein-induced DNA U-turn

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Synthesis and hydrolysis of ADP-arsenate by beef heart submitochondrial particles

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3337691

Azole-bridged diplatinum anticancer compounds. Modulating DNA flexibility to escape repair mechanism and avoid cross resistance

24 September 2018

1 reference

12 December 2020

Comment on "A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus"

1 reference

12 December 2020

Principles of stop-codon reading on the ribosome

1 reference

12 December 2020

Comment on "A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus"

1 reference

12 December 2020

Theoretical modeling on the kinetics of the arsenate-ester hydrolysis: implications to the stability of As-DNA

1 reference

12 December 2020

Comment on "A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus"

1 reference

12 December 2020

Comment on "A Bacterium That Can Grow by Using Arsenic Instead of Phosphorus"

1 reference

12 December 2020

Identifiers

DOI

10.1021/JP300307U

1 reference

11 August 2017

1 reference

PMC publication ID

3337691

11 August 2017

PubMed publication ID

22480264

1 reference

PMC publication ID

3337691