Correlation of local effects of DNA sequence and position of β-alanine inserts with polyamide-DNA complex binding affinities and kinetics. (Q36594943)

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18 February 2020

title

Correlation of local effects of DNA sequence and position of β-alanine inserts with polyamide-DNA complex binding affinities and kinetics (English)

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18 February 2020

4

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18 February 2020

W David Wilson

5

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18 February 2020

author name string

Shuo Wang

1

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18 February 2020

Rupesh Nanjunda

2

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18 February 2020

Karl Aston

3

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18 February 2020

language of work or name

English

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publication date

28 November 2012

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18 February 2020

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18 February 2020

volume

51

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18 February 2020

issue

49

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18 February 2020

page(s)

9796-9806

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Characterization and solubilization of pyrrole-imidazole polyamide aggregates

18 February 2020

cites work

1 reference

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Allosteric analysis of glucocorticoid receptor-DNA interface induced by cyclic Py-Im polyamide: a molecular dynamics simulation study

9 September 2017

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Pharmacokinetics of Py-Im polyamides depend on architecture: cyclic versus linear

9 September 2017

1 reference

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Modulation of NF-κB-dependent gene transcription using programmable DNA minor groove binders

9 September 2017

1 reference

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Minor groove to major groove, an unusual DNA sequence-dependent change in bend directionality by a distamycin dimer

9 September 2017

1 reference

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HPV episome levels are potently decreased by pyrrole-imidazole polyamides.

9 September 2017

1 reference

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Water-mediated binding of agents that target the DNA minor groove

9 September 2017

1 reference

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Induced topological changes in DNA complexes: influence of DNA sequences and small molecule structures.

9 September 2017

1 reference

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Structural Basis for Cyclic Py-Im Polyamide Allosteric Inhibition of Nuclear Receptor Binding

9 September 2017

1 reference

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Allosteric modulation of DNA by small molecules

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Large, sequence-dependent effects on DNA conformation by minor groove binding compounds.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Synthesis and biological properties of sequence-specific DNA-alkylating pyrrole-imidazole polyamides

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Structure of a beta-alanine-linked polyamide bound to a full helical turn of purine tract DNA in the 1:1 motif

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Molecular recognition of DNA by small molecules

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Determination of the refractive index increments of small molecules for correction of surface plasmon resonance data

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Energetics of DNA intercalation reactions

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

A thermodynamic and structural analysis of DNA minor-groove complex formation

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Affinity analysis of non-steady-state data obtained under mass transport limited conditions using BIAcore technology

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Binding site size limit of the 2:1 pyrrole-imidazole polyamide-DNA motif

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Targeting the ICB2 site of the topoisomerase IIalpha promoter with a formamido-pyrrole-imidazole-pyrrole H-pin polyamide.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Inhibition of MMP-9 transcription and suppression of tumor metastasis by pyrrole-imidazole polyamide

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Improved quantitation of DNA curvature using ligation ladders.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Fluorescence assay of polyamide-DNA interactions

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Targeted chemical wedges reveal the role of allosteric DNA modulation in protein-DNA assembly

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Evaluation of drug-nucleic acid interactions by thermal melting curves

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Global features of DNA structure by comparative gel electrophoresis

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Promoter scanning of the human COX-2 gene with 8-ring polyamides: unexpected weakening of polyamide-DNA binding and selectivity by replacing an internal N-Me-pyrrole with β-alanine

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Quantitation of pyrrole-imidazole polyamide in rat plasma by high-performance liquid chromatography coupled with UV detection

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Transcriptional inhibition of progressive renal disease by gene silencing pyrrole-imidazole polyamide targeting of the transforming growth factor-β1 promoter

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Allostery: DNA does it, too.

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Development of gene silencing pyrrole-imidazole polyamide targeting the TGF-beta1 promoter for treatment of progressive renal diseases

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Inhibition of transcription at a coding sequence by alkylating polyamide

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Comparative thermodynamics for monomer and dimer sequence-dependent binding of a heterocyclic dication in the DNA minor groove

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Expanding the recognition of the minor groove of DNA by incorporation of beta-alanine in hairpin polyamides

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

The CD of ligand-DNA systems. 2. Poly(dA-dT) B-DNA

20 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3567211

Kinetic analysis of macromolecular interactions using surface plasmon resonance biosensors

4 December 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23167504

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The thermodynamics of polyamide-DNA recognition: hairpin polyamide binding in the minor groove of duplex DNA

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23167504

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1021/BI301327V

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23167504%20AND%20SRC:MED&resulttype=core&format=json

18 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23167504%20AND%20SRC:MED&resulttype=core&format=json

18 February 2020

PubMed publication ID

23167504

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23167504%20AND%20SRC:MED&resulttype=core&format=json