Mechanism of DNA flexibility enhancement by HMGB proteins

Jingyun Zhang, Micah J. Mccauley, L James Maher III, Mark C. Williams, N. E. Israeloff

Research output: Contribution to journalArticle

40 Citations (Scopus)

Abstract

The mechanism by which sequence non-specific DNA-binding proteins enhance DNA flexibility is studied by examining complexes of double-stranded DNA with the high mobility group type B proteins HMGB2 (Box A) and HMGB1 (Box A+B) using atomic force microscopy. DNA end-to-end distances and local DNA bend angle distributions are analyzed for protein complexes deposited on a mica surface. For HMGB2 (Box A) binding we find a mean induced DNA bend angle of 78°, with a standard error of 1.3° and a SD of 23°, while HMGB1 (Box A+B) binding gives a mean bend angle of 67°, with a standard error of 1.3° and a SD of 21°. These results are consistent with analysis of the observed global persistence length changes derived from end-to-end distance measurements, and with results of DNA-stretching experiments. The moderately broad distributions of bend angles induced by both proteins are inconsistent with either a static kink model, or a purely flexible hinge model for DNA distortion by protein binding. Therefore, the mechanism by which HMGB proteins enhance the flexibility of DNA must differ from that of the Escherichia coli HU protein, which in previous studies showed a flat angle distribution consistent with a flexible hinge model.

Original languageEnglish (US)
Pages (from-to)1107-1114
Number of pages8
JournalNucleic Acids Research
Volume37
Issue number4
DOIs
StatePublished - 2009

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HMGB Proteins
DNA
HMGB2 Protein
HMGB1 Protein
DNA-Binding Proteins
High Mobility Group Proteins
Atomic Force Microscopy
Escherichia coli Proteins
Proteins

ASJC Scopus subject areas

  • Genetics

Cite this

Zhang, J., Mccauley, M. J., Maher III, L. J., Williams, M. C., & Israeloff, N. E. (2009). Mechanism of DNA flexibility enhancement by HMGB proteins. Nucleic Acids Research, 37(4), 1107-1114. https://doi.org/10.1093/nar/gkn1011

Mechanism of DNA flexibility enhancement by HMGB proteins. / Zhang, Jingyun; Mccauley, Micah J.; Maher III, L James; Williams, Mark C.; Israeloff, N. E.

In: Nucleic Acids Research, Vol. 37, No. 4, 2009, p. 1107-1114.

Research output: Contribution to journalArticle

Zhang, J, Mccauley, MJ, Maher III, LJ, Williams, MC & Israeloff, NE 2009, 'Mechanism of DNA flexibility enhancement by HMGB proteins', Nucleic Acids Research, vol. 37, no. 4, pp. 1107-1114. https://doi.org/10.1093/nar/gkn1011
Zhang, Jingyun ; Mccauley, Micah J. ; Maher III, L James ; Williams, Mark C. ; Israeloff, N. E. / Mechanism of DNA flexibility enhancement by HMGB proteins. In: Nucleic Acids Research. 2009 ; Vol. 37, No. 4. pp. 1107-1114.
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