(Q43221464)

16 November 2017

Sequence-dependent base pair opening in DNA double helix (English)

1 reference

Maxim D. Frank-Kamenetskii

16 November 2017

series ordinal

3

object named as

Maxim D Frank-Kamenetskii

1 reference

16 November 2017

Andrew Krueger

1

1 reference

PMCID

1432109

16 November 2017

Ekaterina Protozanova

series ordinal

2

1 reference

PMCID

1432109

16 November 2017

language of work or name

English

0 references

publication date

24 February 2006

1 reference

16 November 2017

1 reference

16 November 2017

90

1 reference

16 November 2017

9

1 reference

16 November 2017

3091-3099

1 reference

Base-stacking and base-pairing contributions into thermal stability of the DNA double helix

16 November 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Crystal structure of a junction between B-DNA and Z-DNA reveals two extruded bases

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

A nuclear magnetic resonance investigation of the energetics of basepair opening pathways in DNA

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Effect of 6-thioguanine on the stability of duplex DNA

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Structure of a repair enzyme interrogating undamaged DNA elucidates recognition of damaged DNA.

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Base pair opening in three DNA-unwinding elements

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Pause point spectra in DNA constant-force unzipping

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Dynamic opening of DNA during the enzymatic search for a damaged base

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Opening mechanism of G.T/U pairs in DNA and RNA duplexes: a combined study of imino proton exchange and molecular dynamics simulation

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Sequence-dependence of the energetics of opening of at basepairs in DNA.

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Stacked-unstacked equilibrium at the nick site of DNA

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Site-specific DNA damage recognition by enzyme-induced base flipping

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Probing site-specific energetics in proteins and nucleic acids by hydrogen exchange and nuclear magnetic resonance spectroscopy

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

A base-flipping mechanism for the T4 phage beta-glucosyltransferase and identification of a transition-state analog

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Force spectroscopy of single DNA and RNA molecules

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

On the stability of double stranded nucleic acids

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

AdoMet-dependent methylation, DNA methyltransferases and base flipping

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Molecular basis for discriminating between normal and damaged bases by the human alkyladenine glycosylase, AAG

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Uracil-DNA glycosylase-DNA substrate and product structures: conformational strain promotes catalytic efficiency by coupled stereoelectronic effects

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Structural basis for recognition and repair of the endogenous mutagen 8-oxoguanine in DNA

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

The non-B-DNA structure of d(CA/TG)n does not differ from that of Z-DNA

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Energetics of base pair opening in a DNA dodecamer containing an A3T3 tract

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Determination of DNA cooperativity factor

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Flipping of cloned d(pCpG)n.d(pCpG)n DNA sequences from right- to left-handed helical structure by salt, Co(III), or negative supercoiling

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Energetics of B-to-Z transition in DNA.

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Conformational flexibility of junctions between contiguous B- and Z-DNAs in supercoiled plasmids

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Melting of DNA: its study and application as a research method

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Characterization of base-pair opening in deoxynucleotide duplexes using catalyzed exchange of the imino proton

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Proton exchange and base-pair lifetimes in a deoxy-duplex containing a purine-pyrimidine step and in the duplex of inverse sequence

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Local stability of DNA and RNA secondary structure and its relation to biological functions

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Processes of base-pair opening and proton exchange in Z-DNA.

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Proton exchange and base-pair opening kinetics in 5'-d(CGCGAATTCGCG)-3' and related dodecamers

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Kinetics and energetics of base-pair opening in 5'-d(CGCGAATTCGCG)-3' and a substituted dodecamer containing G.T mismatches

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Proton exchange in DNA-luzopeptin and DNA-echinomycin bisintercalation complexes: rates and processes of base-pair opening.

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Fluctuational opening of the double helix as revealed by theoretical and experimental study of DNA interaction with formaldehyde

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Propagation of melting cooperativity along the phosphodiester backbone of DNA.

25 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Nucleic acid base pair dynamics: the impact of sequence and structure using free-energy calculations.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Free energy and structural pathways of base flipping in a DNA GCGC containing sequence.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Sequence dependence of base-pair opening in a DNA dodecamer containing the CACA/GTGT sequence motif

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Left-handed Z form in superhelical DNA: a theoretical study.

15 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1432109

Facile transition of poly[d(TG)·d(CA)] into a left-handed helix in physiological conditions

15 August 2018

1 reference

12 December 2020

Simplification of the empirical relationship between melting temperature of DNA, its GC content and concentration of sodium ions in solution

1 reference

12 December 2020

Evidence from base-pair kinetics for two types of adenine tract structures in solution: their relation to DNA curvature

1 reference

12 December 2020

How the double helix breathes

1 reference

12 December 2020

Molecular mechanical studies of base-pair opening in d(CGCGC):d(GCGCG), dG5 . dC5, d(TATAT):d(ATATA), and dA5 . dT5 in the B and Z forms of DNA

1 reference

12 December 2020

Left-handed Z-DNA is induced by supercoiling in physiological ionic conditions

1 reference

12 December 2020

Studies of base pair kinetics by NMR measurement of proton exchange

1 reference

12 December 2020

Fluctuational base-pair opening in DNA at temperatures below the helix-coil transition region

1 reference

12 December 2020

Chemistry of Glycosylases and Endonucleases Involved in Base-Excision Repair

1 reference

12 December 2020

Proton exchange and internal motions in two chromomycin dimer-DNA oligomer complexes

1 reference

12 December 2020

Thermodynamic parameters are sequence-dependent for the supercoil-induced B to Z transition in recombinant plasmids

1 reference

12 December 2020

Thermodynamics of the B–Z transition in superhelical DNA

1 reference

12 December 2020

A single mode of DNA base-pair opening drives imino proton exchange

1 reference

12 December 2020

Allowance for heterogeneous stacking in the DNA helix-coil transition theory

1 reference

12 December 2020

Theoretical study of DNA unwinding under the action of formaldehyde

1 reference

12 December 2020

The ionic strength dependence of the cooperativity factor for DNA melting

1 reference

12 December 2020

10.1529/BIOPHYSJ.105.078774

Identifiers

DOI

1 reference

16 November 2017

1 reference

16 November 2017

1 reference

PMCID

1432109