The role of intercalating residues in chromosomal high-mobility-group protein DNA binding, bending and specificity (Q39758727)

14 September 2017

The role of intercalating residues in chromosomal high-mobility-group protein DNA binding, bending and specificity (English)

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14 September 2017

Janet Klass

1

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14 September 2017

Frank V Murphy

2

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14 September 2017

Susan Fouts

3

1 reference

14 September 2017

Melissa Serenil

4

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14 September 2017

Anita Changela

5

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14 September 2017

Jessica Siple

6

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14 September 2017

Mair E A Churchill

7

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14 September 2017

language of work or name

English

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publication date

1 June 2003

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14 September 2017

Nucleic Acids Research

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14 September 2017

31

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14 September 2017

11

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14 September 2017

2852-2864

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describes a project that uses

14 September 2017

ImageQuant

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11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC156723/fullTextXML

inferred from PubMed Central ID database lookup

cites work

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The S. cerevisiae architectural HMGB protein NHP6A complexed with DNA: DNA and protein conformational changes upon binding

22 September 2017

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At the center of eukaryotic life

22 September 2017

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The DNA architectural protein HMGB1 displays two distinct modes of action that promote enhanceosome assembly.

22 September 2017

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Solution structure of the first HMG box domain in human upstream binding factor

22 September 2017

1 reference

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Structural basis for SRY-dependent 46-X,Y sex reversal: modulation of DNA bending by a naturally occurring point mutation

22 September 2017

1 reference

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Solution structure and backbone dynamics of the DNA-binding domain of mouse Sox-5

22 September 2017

1 reference

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HMG1 and 2, and related 'architectural' DNA-binding proteins

22 September 2017

1 reference

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Floppy SOX: mutual induced fit in hmg (high-mobility group) box-DNA recognition.

22 September 2017

1 reference

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A role of basic residues and the putative intercalating phenylalanine of the HMG-1 box B in DNA supercoiling and binding to four-way DNA junctions

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

van't Hoff enthalpies without baselines.

22 September 2017

1 reference

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Mechanism for specificity by HMG-1 in enhanceosome assembly

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Nonsequence-specific DNA recognition: a structural perspective

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The structure of a chromosomal high mobility group protein-DNA complex reveals sequence-neutral mechanisms important for non-sequence-specific DNA recognition

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

TRF1 binds a bipartite telomeric site with extreme spatial flexibility

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Basis for recognition of cisplatin-modified DNA by high-mobility-group proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Solution structure of the HMG protein NHP6A and its interaction with DNA reveals the structural determinants for non-sequence-specific binding

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

High-mobility group chromatin proteins 1 and 2 functionally interact with steroid hormone receptors to enhance their DNA binding in vitro and transcriptional activity in mammalian cells

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Structure prediction of a complex between the chromosomal protein HMG-D and DNA.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

High mobility group protein-1 (HMG-1) is a unique activator of p53

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Determinants of DNA binding and bending by the Saccharomyces cerevisiae high mobility group protein NHP6A that are important for its biological activities. Role of the unique N terminus and putative intercalating methionine

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Modifying the helical structure of DNA by design: recruitment of an architecture-specific protein to an enforced DNA bend.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Stimulation of V(D)J cleavage by high mobility group proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The acidic tail of the high mobility group protein HMG-D modulates the structural selectivity of DNA binding

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

HMG1 interacts with HOX proteins and enhances their DNA binding and transcriptional activation

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Evidence for a shared structural role for HMG1 and linker histones B4 and H1 in organizing chromatin

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Solution structure of the sequence-specific HMG box of the lymphocyte transcriptional activator Sox-4

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Structure of the A-domain of HMG1 and its interaction with DNA as studied by heteronuclear three- and four-dimensional NMR spectroscopy

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Structure of the HMG box motif in the B-domain of HMG1

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The nonspecific DNA-binding and -bending proteins HMG1 and HMG2 promote the assembly of complex nucleoprotein structures

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The SRY high-mobility-group box recognizes DNA by partial intercalation in the minor groove: a topological mechanism of sequence specificity

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

HMG domain proteins: architectural elements in the assembly of nucleoprotein structures

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

A signature for the HMG-1 box DNA-binding proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

SRY and sex determination in mammals

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The high mobility group protein HMG1 can reversibly inhibit class II gene transcription by interaction with the TATA-binding protein

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Molecular basis of mammalian sexual determination: activation of Müllerian inhibiting substance gene expression by SRY.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The solution structure and dynamics of the DNA-binding domain of HMG-D from Drosophila melanogaster

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Sex-reversing mutations affect the architecture of SRY-DNA complexes

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The HMG-1 box protein family: classification and functional relationships.

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Molecular basis of human 46X,Y sex reversal revealed from the three-dimensional solution structure of the human SRY-DNA complex

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

High mobility group protein 2 functionally interacts with the POU domains of octamer transcription factors

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Structural basis for DNA bending by the architectural transcription factor LEF-1

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

DNA conformation and protein binding

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Nucleolar transcription factor hUBF contains a DNA-binding motif with homology to HMG proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

A gene from the human sex-determining region encodes a protein with homology to a conserved DNA-binding motif

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The DNA binding site of HMG1 protein is composed of two similar segments (HMG boxes), both of which have counterparts in other eukaryotic regulatory proteins

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The DNA sequence specificity of HMG boxes lies in the minor wing of the structure

22 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

HMG-D is an architecture-specific protein that preferentially binds to DNA containing the dinucleotide TG.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

High-mobility-group chromosomal proteins: architectural components that facilitate chromatin function.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Combinatorial pattern discovery in biological sequences: The TEIRESIAS algorithm.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

The SRY cantilever motif discriminates between sequence- and structure-specific DNA recognition: alanine mutagenesis of an HMG box.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

DNA-binding properties of the HMG domain of the lymphoid-specific transcriptional regulator LEF-1

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Binding to cisplatin-modified DNA by the Saccharomyces cerevisiae HMGB protein Nhp6A.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Structural requirements for cooperative binding of HMG1 to DNA minicircles.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Two mutations of basic residues within the N-terminus of HMG-1 B domain with different effects on DNA supercoiling and binding to bent DNA.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Structural studies of the high mobility group globular domain and basic tail of HMG-D bound to disulfide cross-linked DNA.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Alanine mutagenesis of high-mobility-group-protein-1 box B (HMG1-B).

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Structure-specific binding of the two tandem HMG boxes of HMG1 to four-way junction DNA is mediated by the A domain.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Interactions of high mobility group box proteins with DNA and chromatin.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Oxidation of a critical methionine modulates DNA binding of the Drosophila melanogaster high mobility group protein, HMG-D.

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Relative helix-forming tendencies of nonpolar amino acids

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

A thermodynamic scale for the helix-forming tendencies of the commonly occurring amino acids

20 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=156723

Intercalating residues determine the mode of HMG1 domains A and B binding to cisplatin-modified DNA

20 August 2018

1 reference

12 December 2020

Structural and Kinetic Studies of a Cisplatin-modified DNA Icosamer Binding to HMG1 Domain B

1 reference

12 December 2020

DNA bending induced by high mobility group proteins studied by fluorescence resonance energy transfer

1 reference

12 December 2020

High Mobility Group Protein 1 Interacts Specifically with the Core Domain of Human TATA Box-binding Protein and Interferes with Transcription Factor IIB within the Pre-initiation Complex

1 reference

12 December 2020

Coregulatory proteins in steroid hormone receptor action: the role of chromatin high mobility group proteins HMG-1 and -2

1 reference

12 December 2020

DNA bending by the chromosomal protein HMG1 and its high mobility group box domains. Effect of flanking sequences

1 reference

12 December 2020

Determining the DNA bending angle induced by non-specific high mobility group-1 (HMG-1) proteins: a novel method

1 reference

12 December 2020

Differences in the DNA-binding properties of the HMG-box domains of HMG1 and the sex-determining factor SRY

1 reference

12 December 2020

The recognition of distorted DNA structures by HMG-D: a footprinting and molecular modelling study

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKG389

1 reference

14 September 2017

1 reference

14 September 2017

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