Mechanism of DNA Compaction by Yeast Mitochondrial Protein Abf2p

Raymond W. Friddle, Jennifer E. Klare, Shelley S. Martin, Michelle Corzett, Rod Balhorn, Enoch P. Baldwin, Ronald J. Baskin, Aleksandr Noy

Research output: Contribution to journalArticle

43 Citations (Scopus)

Abstract

We used high-resolution atomic force microscopy to image the compaction of linear and circular DNA by the yeast mitochondrial protein Abf2p, which plays a major role in packaging mitochondrial DNA. Atomic force microscopy images show that protein binding induces drastic bends in the DNA backbone for both linear and circular DNA. At a high concentration of Abf2p DNA collapses into a tight nucleoprotein complex. We quantified the compaction of linear DNA by measuring the end-to-end distance of the DNA molecule at increasing concentrations of Abf2p. We also derived a polymer statistical mechanics model that provides a quantitative description of compaction observed in our experiments. This model shows that sharp bends in the DNA backbone are often sufficient to cause DNA compaction. Comparison of our model with the experimental data showed excellent quantitative correlation and allowed us to determine binding characteristics for Abf2p. These studies indicate that Abf2p compacts DNA through a simple mechanism that involves bending of the DNA backbone. We discuss the implications of such a mechanism for mitochondrial DNA maintenance and organization.

Original languageEnglish (US)
Pages (from-to)1632-1639
Number of pages8
JournalBiophysical Journal
Volume86
Issue number3
StatePublished - Mar 2004
Externally publishedYes

Fingerprint

Fungal Proteins
Mitochondrial Proteins
DNA
Circular DNA
Atomic Force Microscopy
Mitochondrial DNA
Nucleoproteins
Statistical Models
Product Packaging
Mechanics
Protein Binding
Polymers
Theoretical Models
Maintenance

ASJC Scopus subject areas

  • Biophysics

Cite this

Friddle, R. W., Klare, J. E., Martin, S. S., Corzett, M., Balhorn, R., Baldwin, E. P., ... Noy, A. (2004). Mechanism of DNA Compaction by Yeast Mitochondrial Protein Abf2p. Biophysical Journal, 86(3), 1632-1639.

Mechanism of DNA Compaction by Yeast Mitochondrial Protein Abf2p. / Friddle, Raymond W.; Klare, Jennifer E.; Martin, Shelley S.; Corzett, Michelle; Balhorn, Rod; Baldwin, Enoch P.; Baskin, Ronald J.; Noy, Aleksandr.

In: Biophysical Journal, Vol. 86, No. 3, 03.2004, p. 1632-1639.

Research output: Contribution to journalArticle

Friddle, RW, Klare, JE, Martin, SS, Corzett, M, Balhorn, R, Baldwin, EP, Baskin, RJ & Noy, A 2004, 'Mechanism of DNA Compaction by Yeast Mitochondrial Protein Abf2p', Biophysical Journal, vol. 86, no. 3, pp. 1632-1639.
Friddle RW, Klare JE, Martin SS, Corzett M, Balhorn R, Baldwin EP et al. Mechanism of DNA Compaction by Yeast Mitochondrial Protein Abf2p. Biophysical Journal. 2004 Mar;86(3):1632-1639.
Friddle, Raymond W. ; Klare, Jennifer E. ; Martin, Shelley S. ; Corzett, Michelle ; Balhorn, Rod ; Baldwin, Enoch P. ; Baskin, Ronald J. ; Noy, Aleksandr. / Mechanism of DNA Compaction by Yeast Mitochondrial Protein Abf2p. In: Biophysical Journal. 2004 ; Vol. 86, No. 3. pp. 1632-1639.
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