Remus Th Dame
Affiliation: Vrije Universiteit
Country: The Netherlands
- Insights into the regulation of transcription by scanning force microscopyR T Dame
Physics of Complex Systems, Department of Physics and Astronomy, Free University of Amsterdam, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
J Microsc 212:244-53. 2003..In this article an overview is given of SFM studies addressing, in particular, topics in the field of transcription in prokaryotic organisms...
- DNA bridging: a property shared among H-NS-like proteinsRemus T Dame
Physics of Complex Systems, Department of Physics and Astronomy, Vrije Universiteit, De Boelelaan 1081, NL 1081 HV Amsterdam, The Netherlands
J Bacteriol 187:1845-8. 2005..Homologues, often with very low sequence identity, are found in most gram-negative bacteria. Microscopic analysis reveals that, despite limited sequence identity, their structural organization results in similar DNA binding properties...
- Analysis of scanning force microscopy images of protein-induced DNA bending using simulationsRemus T Dame
Physics of Complex Systems, Department of Physics and Astronomy, Faculty of Sciences, Vrije Universiteit De Boelelaan 1081, NL 1081 HV, Amsterdam, The Netherlands
Nucleic Acids Res 33:e68. 2005..In this manner, we were able to obtain accurate estimates for the bending angles induced by nuclear factor I, octamer-binding transcription factor 1, the human XPC-Rad23B complex and integration host factor [correction]..
- The role of nucleoid-associated proteins in the organization and compaction of bacterial chromatinRemus T Dame
Physics of Complex Systems, Department of Physics and Astronomy, Faculty of Sciences, Vrije Universiteit, Amsterdam, The Netherlands
Mol Microbiol 56:858-70. 2005..Many of these new insights can be attributed to the use of recently developed biophysical techniques...
- Single-molecule micromanipulation studies of DNA and architectural proteinsRemus Th Dame
Department of Physics and Astronomy and Laser Centre, VU University Amsterdam, Amsterdam, The Netherlands
Biochem Soc Trans 36:732-7. 2008..Besides revealing architectural properties, these approaches can also reveal unique parameters not accessible to biochemical approaches, such as the binding kinetics and unbinding forces of individual proteins...
- The architectural role of nucleoid-associated proteins in the organization of bacterial chromatin: a molecular perspectiveMartijn S Luijsterburg
Department of Physics and Astronomy, Faculty of Sciences, Vrije Universiteit, Amsterdam, De Boelelaan 1081, 1081 HV Amsterdam, The Netherlands
J Struct Biol 156:262-72. 2006..In this review, we provide an overview of the major nucleoid-associated proteins from a structural perspective and we discuss their possible roles in dynamically shaping the bacterial nucleoid...
- The major architects of chromatin: architectural proteins in bacteria, archaea and eukaryotesMartijn S Luijsterburg
Swammerdam Institute for Life Sciences, University of Amsterdam, Kruislaan, Amsterdam, The Netherlands
Crit Rev Biochem Mol Biol 43:393-418. 2008..We conclude that the underlying mechanisms that shape and remodel genomes are remarkably similar among bacteria, archaea and eukaryotes...
- Bacterial chromatin organization by H-NS protein unravelled using dual DNA manipulationRemus T Dame
Department of Physics and Astronomy and Laser Centre, Vrije Universiteit, De Boelelaan 1081, 1081 HV, Amsterdam, The Netherlands
Nature 444:387-90. 2006..Finally, our experimental approach is widely applicable to other DNA bridging proteins, as well as to complex DNA interactions involving multiple DNA molecules...
- Predicting the effect of ions on the conformation of the H-NS dimerization domainJocelyne Vreede
Computational Chemistry, van t Hoff Institute for Molecular Sciences, University of Amsterdam, Amsterdam, The Netherlands
Biophys J 103:89-98. 2012..Together, our simulations suggest that osmoregulation could be mediated by changes in the ratio of parallel- and antiparallel-oriented H-NS dimers...