Dagmar Klostermeier

Summary

Country: Germany

Publications

  1. ncbi Single-molecule FRET reveals nucleotide-driven conformational changes in molecular machines and their link to RNA unwinding and DNA supercoiling
    Dagmar Klostermeier
    University of Basel, Biozentrum, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Biochem Soc Trans 39:611-6. 2011
  2. ncbi Cooperative binding of ATP and RNA induces a closed conformation in a DEAD box RNA helicase
    Bettina Theissen
    Department of Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Proc Natl Acad Sci U S A 105:548-53. 2008
  3. ncbi The DNA-gate of Bacillus subtilis gyrase is predominantly in the closed conformation during the DNA supercoiling reaction
    Airat Gubaev
    Biozentrum, Department of Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Proc Natl Acad Sci U S A 106:13278-83. 2009
  4. ncbi A structural model for the DEAD box helicase YxiN in solution: localization of the RNA binding domain
    Anne R Karow
    Department of Biophysical Chemistry, Biozentrum, University of Basel, Basel, Switzerland
    J Mol Biol 402:629-37. 2010
  5. ncbi The latch modulates nucleotide and DNA binding to the helicase-like domain of Thermotoga maritima reverse gyrase and is required for positive DNA supercoiling
    Agneyo Ganguly
    Department of Biophysical Chemistry, University of Basel, Biozentrum, Klingelbergstrasse 70, CH 4056 Basel and Hoffmann La Roche AG, Grenzacher Strasse 124, CH 4070 Basel, Switzerland
    Nucleic Acids Res 39:1789-800. 2011
  6. ncbi The DEAD box helicase YxiN maintains a closed conformation during ATP hydrolysis
    Regula Aregger
    University of Basel, Biozentrum, Biophysical Chemistry, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Biochemistry 48:10679-81. 2009
  7. ncbi The conformational flexibility of the helicase-like domain from Thermotoga maritima reverse gyrase is restricted by the topoisomerase domain
    Yoandris del Toro Duany
    Biozentrum, Department of Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Biochemistry 50:5816-23. 2011
  8. ncbi Adenosine 5'-O-(3-thio)triphosphate (ATPgammaS) promotes positive supercoiling of DNA by T. maritima reverse gyrase
    Stefan P Jungblut
    University of Basel, Biozentrum, Dept of Biophysical Chemistry, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    J Mol Biol 371:197-209. 2007
  9. ncbi The putative RNase P motif in the DEAD box helicase Hera is dispensable for efficient interaction with RNA and helicase activity
    Martin H Linden
    Department of Biophysical Chemistry, Biozentrum, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Nucleic Acids Res 36:5800-11. 2008
  10. ncbi The reverse gyrase helicase-like domain is a nucleotide-dependent switch that is attenuated by the topoisomerase domain
    Yoandris del Toro Duany
    University of Basel, Biozentrum, Biophysical Chemistry, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Nucleic Acids Res 36:5882-95. 2008

Collaborators

  • Airat Gubaev
  • Markus G Rudolph
  • Anne R Karow
  • Yoandris del Toro Duany
  • Manuel Hilbert
  • Bettina Theissen
  • Stefan P Jungblut
  • Agneyo Ganguly
  • Martin A Lanz
  • Regula Aregger
  • Martin H Linden
  • Thomas Göttler
  • Fabian Kebbel
  • Jürgen Köhler
  • Andreas S Schmidt
  • Roland K Hartmann

Detail Information

Publications18

  1. ncbi Single-molecule FRET reveals nucleotide-driven conformational changes in molecular machines and their link to RNA unwinding and DNA supercoiling
    Dagmar Klostermeier
    University of Basel, Biozentrum, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Biochem Soc Trans 39:611-6. 2011
    ....
  2. ncbi Cooperative binding of ATP and RNA induces a closed conformation in a DEAD box RNA helicase
    Bettina Theissen
    Department of Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Proc Natl Acad Sci U S A 105:548-53. 2008
    ..These results establish a closure of the interdomain cleft in the helicase core at the beginning of the unwinding reaction, and suggest a conserved mechanism of energy conversion among DEAD box helicases across kingdoms...
  3. ncbi The DNA-gate of Bacillus subtilis gyrase is predominantly in the closed conformation during the DNA supercoiling reaction
    Airat Gubaev
    Biozentrum, Department of Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Proc Natl Acad Sci U S A 106:13278-83. 2009
    ..During the relaxation and supercoiling reactions, gyrase with an open DNA-gate is not significantly populated, consistent with gate-opening as a very rare event that only occurs briefly to allow for strand passage...
  4. ncbi A structural model for the DEAD box helicase YxiN in solution: localization of the RNA binding domain
    Anne R Karow
    Department of Biophysical Chemistry, Biozentrum, University of Basel, Basel, Switzerland
    J Mol Biol 402:629-37. 2010
    ..Possibly, this region constitutes an adaptable interface that generally allows for the interaction of the helicase core with additional domains or interacting factors...
  5. ncbi The latch modulates nucleotide and DNA binding to the helicase-like domain of Thermotoga maritima reverse gyrase and is required for positive DNA supercoiling
    Agneyo Ganguly
    Department of Biophysical Chemistry, University of Basel, Biozentrum, Klingelbergstrasse 70, CH 4056 Basel and Hoffmann La Roche AG, Grenzacher Strasse 124, CH 4070 Basel, Switzerland
    Nucleic Acids Res 39:1789-800. 2011
    ..Thus, the latch coordinates the individual domain activities by modulating the helicase-like domain, and by communicating changes in the nucleotide state to the topoisomerase domain...
  6. ncbi The DEAD box helicase YxiN maintains a closed conformation during ATP hydrolysis
    Regula Aregger
    University of Basel, Biozentrum, Biophysical Chemistry, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Biochemistry 48:10679-81. 2009
    ..Our results show that the interdomain cleft in the helicase core closes upon ATP binding at the beginning of the cycle. Reopening occurs after ATP hydrolysis, most likely coupled to phosphate release...
  7. ncbi The conformational flexibility of the helicase-like domain from Thermotoga maritima reverse gyrase is restricted by the topoisomerase domain
    Yoandris del Toro Duany
    Biozentrum, Department of Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Biochemistry 50:5816-23. 2011
    ..Counterparts of this insert region are located at very different positions in other DNA-processing enzymes but may point toward a general role in DNA strand separation...
  8. ncbi Adenosine 5'-O-(3-thio)triphosphate (ATPgammaS) promotes positive supercoiling of DNA by T. maritima reverse gyrase
    Stefan P Jungblut
    University of Basel, Biozentrum, Dept of Biophysical Chemistry, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    J Mol Biol 371:197-209. 2007
    ....
  9. ncbi The putative RNase P motif in the DEAD box helicase Hera is dispensable for efficient interaction with RNA and helicase activity
    Martin H Linden
    Department of Biophysical Chemistry, Biozentrum, University of Basel, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Nucleic Acids Res 36:5800-11. 2008
    ..In addition, the specificity of Hera for RNase P RNA may be required for RNase P RNA folding or RNase P assembly...
  10. ncbi The reverse gyrase helicase-like domain is a nucleotide-dependent switch that is attenuated by the topoisomerase domain
    Yoandris del Toro Duany
    University of Basel, Biozentrum, Biophysical Chemistry, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Nucleic Acids Res 36:5882-95. 2008
    ..This inhibitory effect of the topoisomerase domain decelerates the progression of reverse gyrase through the nucleotide cycle, possibly providing optimal coordination of ATP hydrolysis with the complex reaction of DNA supercoiling...
  11. ncbi The mechanism of ATP-dependent RNA unwinding by DEAD box proteins
    Manuel Hilbert
    Biozentrum, Biophysical Chemistry, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Biol Chem 390:1237-50. 2009
    ..After ATP hydrolysis and phosphate release, the DEAD box protein returns to a low-affinity state for RNA. Dissociation of the second RNA strand and reopening of the cleft in the helicase core allow for further catalytic cycles...
  12. ncbi Guiding strand passage: DNA-induced movement of the gyrase C-terminal domains defines an early step in the supercoiling cycle
    Martin A Lanz
    University of Basel, Biozentrum, Biophysical Chemistry, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Nucleic Acids Res 39:9681-94. 2011
    ....
  13. ncbi Nucleotide-driven conformational changes in the reverse gyrase helicase-like domain couple the nucleotide cycle to DNA processing
    Yoandris del Toro Duany
    University of Basel, Biozentrum, Dept of Biophysical Chemistry, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Phys Chem Chem Phys 13:10009-19. 2011
    ....
  14. ncbi A novel dimerization motif in the C-terminal domain of the Thermus thermophilus DEAD box helicase Hera confers substantial flexibility
    Dagmar Klostermeier
    Division of Biophysical Chemistry, Biozentrum, University of Basel, CH 4056 Basel, Switzerland
    Nucleic Acids Res 37:421-30. 2009
    ..Combination of the previously determined N-terminal Hera structure with the C-terminal Hera structures allows generation of a model for the entire Hera dimer, where two helicase cores can work in conjunction on large RNA substrates...
  15. ncbi A conformational change in the helicase core is necessary but not sufficient for RNA unwinding by the DEAD box helicase YxiN
    Anne R Karow
    University of Basel, Biozentrum, Biophysical Chemistry, Klingelbergstrasse 70, 4056 Basel, Switzerland
    Nucleic Acids Res 37:4464-71. 2009
    ..Possibly, the K52Q and motif III mutants still introduce a kink into the backbone of bound RNA, whereas G303A fails to kink the RNA substrate...
  16. ncbi eIF4G stimulates the activity of the DEAD box protein eIF4A by a conformational guidance mechanism
    Manuel Hilbert
    Dept of Biophysical Chemistry, University of Basel, Biozentrum, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    Nucleic Acids Res 39:2260-70. 2011
    ..Subtle changes induced by eIF4G may be amplified by input signals from other translation factors, leading to an efficient regulation of translation initiation...
  17. ncbi Authentic interdomain communication in an RNA helicase reconstituted by expressed protein ligation of two helicase domains
    Anne R Karow
    Department of Biophysical Chemistry, University of Basel, Switzerland
    FEBS J 274:463-73. 2007
    ..Finally, ligated YxiN unwinds a minimal RNA substrate to an extent comparable to that of the wild-type helicase, confirming authentic interdomain communication...
  18. ncbi Dissection of the nucleotide cycle of B. subtilis DNA gyrase and its modulation by DNA
    Thomas Göttler
    Division of Biophysical Chemistry, Biozentrum, University of Basel, CH 4056 Basel, Switzerland
    J Mol Biol 367:1392-404. 2007
    ..This suggests that each topoisomerase represents a different solution to the complex reaction sequence in DNA supercoiling...