ArticleNucleic acids research2009
Differences between Ca2+ and Mg2+ in DNA binding and release by the SfiI restriction endonuclease: implications for DNA looping.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed, 24 citations in OpenAlex.
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- Mechanistic Insights into the Phase Separation Behavior and Pathway-Directed Information Exchange in all-DNA Droplets.Angewandte Chemie (International ed. in English) · 2022Article
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- Extracellular Polymeric Substances Acting as a Permeable Barrier Hinder the Lateral Transfer of Antibiotic Resistance Genes.Frontiers in microbiology · 2019Article
- Phosphorylation of RAF Kinase Dimers Drives Conformational Changes that Facilitate Transactivation.Angewandte Chemie (International ed. in English) · 2016Article
- Amplified single base-pair mismatch detection via aggregation of exonuclease-sheared gold nanoparticles.Analytical chemistry · 2014Article
- Calcium inhibition of ribonuclease H1 two-metal ion catalysis.Journal of the American Chemical Society · 2014Article
- Illuminating the reaction pathway of the FokI restriction endonuclease by fluorescence resonance energy transfer.Nucleic acids research · 2012Article
- Visual analysis of concerted cleavage by type IIF restriction enzyme SfiI in subsecond time region.Biophysical journal · 2011Article
- DNA synapsis through transient tetramerization triggers cleavage by Ecl18kI restriction enzyme.Nucleic acids research · 2010Article
- Single-molecule dynamics of the DNA-EcoRII protein complexes revealed with high-speed atomic force microscopy.Biochemistry · 2009Article
- Dissecting protein-induced DNA looping dynamics in real time.Nucleic acids research · 2009Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Many enzymes acting on DNA require Mg(2+) ions not only for catalysis but also to bind DNA. Binding studies often employ Ca(2+) as a substitute for Mg(2+), to promote DNA binding whilst disallowing catalysis. The SfiI endonuclease requires divalent metal ions to bind DNA but, in contrast to many systems where Ca(2+) mimics Mg(2+), Ca(2+) causes SfiI to bind DNA almost irreversibly. Equilibrium binding by wild-type SfiI cannot be conducted with Mg(2+) present as the DNA is cleaved so, to study the effect of Mg(2+) on DNA binding, two catalytically-inactive mutants were constructed. The mutants bound DNA in the presence of either Ca(2+) or Mg(2+) but, unlike wild-type SfiI with Ca(2+), the binding was reversible. With both mutants, dissociation was slow with Ca(2+) but was in one case much faster with Mg(2+). Hence, Ca(2+) can affect DNA binding differently from Mg(2+). Moreover, SfiI is an archetypal system for DNA looping; on DNA with two recognition sites, it binds to both sites and loops out the intervening DNA. While the dynamics of looping cannot be measured with wild-type SfiI and Ca(2+), it becomes accessible with the mutant and Mg(2+).
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