DNA topoisomerases: harnessing and constraining energy to govern chromosome topology
Top Cited Papers
- 1 February 2008
- journal article
- review article
- Published by Cambridge University Press (CUP) in Quarterly Reviews of Biophysics
- Vol. 41 (1), 41-101
- https://doi.org/10.1017/s003358350800468x
Abstract
DNA topoisomerases are a diverse set of essential enzymes responsible for maintaining chromosomes in an appropriate topological state. Although they vary considerably in structure and mechanism, the partnership between topoisomerases and DNA has engendered commonalities in how these enzymes engage nucleic acid substrates and control DNA strand manipulations. All topoisomerases can harness the free energy stored in supercoiled DNA to drive their reactions; some further use the energy of ATP to alter the topology of DNA away from an enzyme-free equilibrium ground state. In the cell, topoisomerases regulate DNA supercoiling and unlink tangled nucleic acid strands to actively maintain chromosomes in a topological state commensurate with particular replicative and transcriptional needs. To carry out these reactions, topoisomerases rely on dynamic macromolecular contacts that alternate between associated and dissociated states throughout the catalytic cycle. In this review, we describe how structural and biochemical studies have furthered our understanding of DNA topoisomerases, with an emphasis on how these complex molecular machines use interfacial interactions to harness and constrain the energy required to manage DNA topology.Keywords
This publication has 322 references indexed in Scilit:
- Structural Studies of E. coli Topoisomerase III-DNA Complexes Reveal a Novel Type IA Topoisomerase-DNA Conformational IntermediateJournal of Molecular Biology, 2007
- Ability of Viral Topoisomerase II To Discern the Handedness of Supercoiled DNA: Bimodal Recognition of DNA Geometry by Type II EnzymesBiochemistry, 2006
- The Structure of the Transition State of the Heterodimeric Topoisomerase I of Leishmania donovani as a Vanadate Complex with Nicked DNAJournal of Molecular Biology, 2006
- The Structural Basis for Substrate Specificity in DNA Topoisomerase IVJournal of Molecular Biology, 2005
- Evolutionary history and higher order classification of AAA+ ATPasesJournal of Structural Biology, 2003
- Structural Flexibility in Human Topoisomerase I Revealed in Multiple Non-isomorphous Crystal StructuresJournal of Molecular Biology, 1999
- The interaction of the F plasmid killer protein, CcdB, with DNA gyrase: induction of DNA cleavage and blocking of transcription 1 1J. KarnJournal of Molecular Biology, 1997
- Meiosis-Specific DNA Double-Strand Breaks Are Catalyzed by Spo11, a Member of a Widely Conserved Protein FamilyCell, 1997
- Characterization of the interaction between topoisomerase II and DNA by transcriptional footprintingJournal of Molecular Biology, 1990
- Structure of plectonemically supercoiled DNAJournal of Molecular Biology, 1990