Role of DNA Conformations in Gene Regulation
作者： Ralf Metzler , Bram van den Broek , Gijs JL Wuite , Michael A Lomholt , None
DOI: 10.1007/978-0-387-92808-1_4
关键词:
摘要: The topology of DNA plays an important role in the search binding proteins for their specific target site on molecule, this process being at heart gene regulation. Connecting to recent single measurements, we provide evidence various mechanisms constituting facilitated diffusion model, particular, one-dimensional motion along chain and intersegmental jumps points close contact between chemically remote segments, mediated by looping.
springer.com
sci-hub.st 参考文章(38)
Otto G. Berg, Måns Ehrenberg, Association kinetics with coupled three- and one-dimensional diffusion Biophysical Chemistry. ,vol. 15, pp. 41- 51 ,(1982) , 10.1016/0301-4622(82)87015-4
F.K. Winkler, D.W. Banner, C. Oefner, D. Tsernoglou, R.S. Brown, S.P. Heathman, R.K. Bryan, P.D. Martin, K. Petratos, K.S. Wilson, THE CRYSTAL STRUCTURE OF ECORV ENDONUCLEASE AND OF ITS COMPLEXES WITH COGNATE AND NON-COGNATE DNA SEGMENTS The EMBO Journal. ,vol. 12, pp. 1781- 1795 ,(1993) , 10.2210/PDB4RVE/PDB
Darren M Gowers, Stephen E Halford, Protein motion from non-specific to specific DNA by three-dimensional routes aided by supercoiling. The EMBO Journal. ,vol. 22, pp. 1410- 1418 ,(2003) , 10.1093/EMBOJ/CDG125
Daniel S. Banks, Cécile Fradin, Anomalous Diffusion of Proteins Due to Molecular Crowding Biophysical Journal. ,vol. 89, pp. 2960- 2971 ,(2005) , 10.1529/BIOPHYSJ.104.051078
Otto G. Berg, Robert B. Winter, Peter H. Von Hippel, Diffusion-Driven Mechanisms of Protein Translocation on Nucleic Acids. 1. Models and Theory? Biochemistry. ,vol. 20, pp. 6929- 6948 ,(1981) , 10.1021/BI00527A028
A.V. Grimstone, Molecular biology of the cell (3rd edn) Trends in Biochemical Sciences. ,vol. 20, pp. 210- ,(1995) , 10.1016/S0968-0004(00)89011-8
Gene-Wei Li, Otto G. Berg, Johan Elf, Effects of macromolecular crowding and DNA looping on gene regulation kinetics Nature Physics. ,vol. 5, pp. 294- 297 ,(2009) , 10.1038/NPHYS1222
Robert B. Winter, Otto G. Berg, Peter H. Von Hippel, Diffusion-driven mechanisms of protein translocation on nucleic acids. 3. The Escherichia coli lac repressor-operator interaction: kinetic measurements and conclusions Biochemistry. ,vol. 20, pp. 6961- 6977 ,(1981) , 10.1021/BI00527A030
Ido Golding, Edward C. Cox, Physical nature of bacterial cytoplasm. Physical Review Letters. ,vol. 96, pp. 098102- 098102 ,(2006) , 10.1103/PHYSREVLETT.96.098102
Kun-Chun Lee, Itamar Borukhov, William M. Gelbart, Andrea J. Liu, Mark J. Stevens, Effect of mono- and multivalent salts on angle-dependent attractions between charged rods Physical Review Letters. ,vol. 93, pp. 128101- ,(2004) , 10.1103/PHYSREVLETT.93.128101