Items where Division is "05 Faculty of Science > Departement Biozentrum > Former Organization Units Biozentrum > Biophysical Chemistry (Klostermeier)"

Article

Del Toro Duany, Y.. (2011) Nucleotide-driven conformational changes in the reverse gyrase helicase-like domain couple the nucleotide cycle to DNA processing. Physical Chemistry, Chemical Physics, 13 (21). pp. 10009-10019.

Del Toro Duany Y, Klostermeier D.. (2011) The conformational flexibility of the helicase-like domain from Thermotoga maritima reverse gyrase is restricted by the topoisomerase domain. Biochemistry, Vol. 50, H. 26 , S. 5816–5823.

Ganguly, A.. (2011) The latch modulates nucleotide and DNA binding to the helicase-like domain of Thermotoga maritima reverse gyrase and is required for positive DNA supercoiling. Nucleic Acids Research, 39 (5). pp. 1789-1800.

Gubaev, A. and Klostermeier, D.. (2011) DNA-induced narrowing of the gyrase N-gate coordinates T-segment capture and strand passage. Proceedings of the National Academy of Sciences of the United States of America, Vol. 108, H. 34. pp. 14085-14090.

Hilbert, M.. (2011) eIF4G stimulates the activity of the DEAD box protein eIF4A by a conformational guidance mechanism. Nucleic Acids Research, 39 (6). pp. 2260-2270.

Klostermeier, D.. (2011) Single-molecule FRET reveals nucleotide-driven conformational changes in molecular machines and their link to RNA unwinding and DNA supercoiling. Biochemical Society transactions, Vol. 39, H. 2. pp. 611-616.

Strohmeier, J.. (2011) Changing nucleotide specificity of the DEAD-box helicase Hera abrogates communication between the Q-motif and the P-loop. Biological Chemistry, 392 (4). pp. 357-369.

Karow, A. R. and Klostermeier, D.. (2010) A structural model for the DEAD box helicase YxiN in solution : localization of the RNA-binding domain. Journal of molecular biology, Vol. 402, H. 4. pp. 629-637.

Aregger, R. and Klostermeier, D.. (2009) The Dead Box Helicase YxiN Maintains a Closed Conformation during ATP Hydrolysis. Biochemistry, Vol. 48, H. 45. pp. 10679-10681.

Gubaev, A. and Hilbert, M. and Klostermeier, D.. (2009) The DNA-gate of Bacillus subtilis gyrase is predominantly in the closed conformation during the DNA supercoiling reaction. Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, H. 32. pp. 13278-13283.

Hilbert, M. and Karow, A. R. and Klostermeier, D.. (2009) The mechanism of ATP-dependent RNA unwinding by DEAD box proteins. Biological Chemistry, 390 (12). pp. 1237-1250.

Karow, A. R. and Klostermeier, D.. (2009) A conformational change in the helicase core is necessary but not sufficient for RNA unwinding by the DEAD box helicase YxiN. Nucleic Acids Research, 37 (13). pp. 4464-4471.

Klostermeier, D. and Rudolph, M. G.. (2009) A novel dimerization motif in the C-terminal domain of the Thermus thermophilus DEAD box helicase Hera confers substantial flexibility. Nucleic Acids Research, 37 (2). pp. 421-430.

Rudolph, M. G. and Klostermeier, D.. (2009) The Thermus thermophilus DEAD box helicase Hera contains a modified RNA recognition motif domain loosely connected to the helicase core. RNA, Vol. 15, H. 11. pp. 1993-2001.

Rudolph, M. G. and Wittmann, J. G. and Klostermeier, D.. (2009) Crystallisation and preliminary characterization of the Thermus thermophilus Hera RNA helicase C-terminal Domain. Acta crystallographica. Section F, Structural biology and crystallization communications online, Vol. 65, no. 3 , S. 248–252.

Linden, M. H. and Hartmann, R. K. and Klostermeier, D.. (2008) The putative RNase P motif in the DEAD box helicase Hera is dispensable for efficient interaction with RNA and helicase activity. Nucleic Acids Research, 36 (18). pp. 5800-5811.

Theissen, B. and Karow, A. R. and Kohler, J. and Gubaev, A. and Klostermeier, D.. (2008) Cooperative binding of ATP and RNA induces a closed conformation in a DEAD box RNA helicase. Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, H. 2. pp. 548-553.

del Toro Duany, Y. and Jungblut, S. P. and Schmidt, A. S. and Klostermeier, D.. (2008) The reverse gyrase helicase-like domain is a nucleotide-dependent switch that is attenuated by the topoisomerase domain. Nucleic Acids Research, 36 (18). pp. 5882-5895.

Gottler, T. and Klostermeier, D.. (2007) Dissection of the nucleotide cycle of B. subtilis DNA gyrase and its modulation by DNA. Journal of molecular biology, Vol. 367, H. 5. pp. 1392-1404.

Jungblut, S. P. and Klostermeier, D.. (2007) Adenosine 5'-O-(3-thio)triphosphate (ATPgammaS) promotes positive supercoiling of DNA by T. maritima reverse gyrase. Journal of molecular biology, Vol. 371, H. 1. pp. 197-209.

Karow, Anne R. and Theissen, Bettina and Klostermeier, Dagmar. (2007) Authentic interdomain communication in an RNA helicase reconstituted by expressed protein ligation of two helicase domains. Federation of European Biochemical Societies Journal, Vol. 274, H. 2. pp. 463-473.

Rudolph, M. G. and Heissmann, R. and Wittmann, J. G. and Klostermeier, D.. (2006) Crystal structure and nucleotide binding of the Thermus thermophilus RNA helicase Hera N-terminal domain. Journal of molecular biology, Vol. 361, H. 4. pp. 731-743.

Pljevaljcic, G. and Klostermeier, D. and Millar, D. P.. (2005) The tertiary structure of the hairpin ribozyme is formed through a slow conformational search. Biochemistry, Vol. 44, H. 12. pp. 4870-4876.

Dumitru, G. L. and Groemping, Y. and Klostermeier, D. and Restle, T. and Deuerling, E. and Reinstein, J.. (2004) DafA cycles between the DnaK chaperone system and translational machinery. Journal of molecular biology, Vol. 339, H. 5. pp. 1179-1189.

Klostermeier, D. and Sears, P. and Wong, C. -H. and Millar, D. P. and Williamson, J. R.. (2004) A three-fluorophore FRET assay for high-throughput screening of small-molecule inhibitors of ribosome assembly. Nucleic Acids Research, 32 (9). pp. 2707-2715.

Klostermeier, D. and Millar, D. P.. (2002) Energetics of hydrogen bond networks in RNA : hydrogen bonds surrounding G+1 and U42 are the major determinants for the tertiary structure stability of the hairpin ribozyme. Biochemistry, Vol. 41, H. 48. pp. 14095-14102.

Klostermeier, D. and Millar, D. P.. (2002) Time-resolved fluorescence resonance energy transfer : a versatile tool for the analysis of nucleic acids. Biopolymers, Vol. 61, H. 3. pp. 159-179.

Brehmer, D. and Rudiger, S. and Gassler, C. S. and Klostermeier, D. and Packschies, L. and Reinstein, J. and Mayer, M. P. and Bukau, B.. (2001) Tuning of chaperone activity of Hsp70 proteins by modulation of nucleotide exchange. Nature Structural biology, Vol. 8, H. 5. pp. 427-432.

Groemping, Y. and Klostermeier, D. and Herrmann, C. and Veit, T. and Seidel, R. and Reinstein, J.. (2001) Regulation of ATPase and chaperone cycle of DnaK from Thermus thermophilus by the nucleotide exchange factor GrpE. Journal of molecular biology, Vol. 305, H. 5. pp. 1173-1183.

Klostermeier, D. and Millar, D. P.. (2001) RNA conformation and folding studied with fluorescence resonance energy transfer. Methods, Vol. 23, no. 3. pp. 240-254.

Klostermeier, D. and Millar, D. P.. (2001) Tertiary structure stability of the hairpin ribozyme in its natural and minimal forms : different energetic contributions from a ribose zipper motif. Biochemistry, Vol. 40, H. 37. pp. 11211-11218.

Ryder, S. P. and Oyelere, A. K. and Padilla, J. L. and Klostermeier, D. and Millar, D. P. and Strobel, S. A.. (2001) Investigation of adenosine base ionization in the hairpin ribozyme by nucleotide analog interference mapping. RNA, Vol. 7, H. 10. pp. 1454-1463.

Klostermeier, D. and Millar, D. P.. (2000) Helical junctions as determinants for RNA folding : origin of tertiary structure stability of the hairpin ribozyme. Biochemistry, Vol. 39, H. 42. pp. 12970-12978.

Klostermeier, D. and Seidel, R. and Reinstein, J.. (1999) The functional cycle and regulation of the Thermus thermophilus DnaK chaperone system. Journal of molecular biology, Vol. 287, H. 3. pp. 511-525.

Laufen, T. and Mayer, M. P. and Beisel, C. and Klostermeier, D. and Mogk, A. and Reinstein, J. and Bukau, B.. (1999) Mechanism of regulation of hsp70 chaperones by DnaJ cochaperones. Proceedings of the National Academy of Sciences of the United States of America, Vol. 96, H. 10. pp. 5452-5457.

Klostermeier, D. and Seidel, R. and Reinstein, J.. (1998) Functional properties of the molecular chaperone DnaK from Thermus thermophilus. Journal of molecular biology, Vol. 279, H. 4. pp. 841-853.

Klostermeier, D. and Bayer, P. and Kraft, M. and Frank, R. W. and Rosch, P.. (1997) Spectroscopic investigations of HIV-1 trans-activator and related peptides in aqueous solutions. Biophysical chemistry, Vol. 63, H. 2-3. pp. 87-96.

Thesis

Aregger, Regula Helena. The impact of the linker in the catalytic core of the DEAD-box protein YxiN from Bacillus subtilis on substrate binding, enzymatic function and conformation. 2012, Doctoral Thesis, University of Basel, Faculty of Science.

Lanz, Martin A.. Conformational change in the C-terminal domain of "B. subtilis" GyrA and in the ATPase-gate of "M. mazei" topoisomerase VI. 2011, Doctoral Thesis, University of Basel, Faculty of Science.

del Toro Duany, Yoandris. The helicase-like domain from "Thermotoga maritima" reverse gyrase : catalytic cycle and contribution to DNA supercoiling. 2011, Doctoral Thesis, University of Basel, Faculty of Science.

Karow, Anne R.. Domain orientation in the RNA helicase YxiN and the role of conformational changes for RNA unwinding. 2010, Doctoral Thesis, University of Basel, Faculty of Science.

Hilbert, Manuel. Einfluss der elF4A bindenden Domäne aus elF4G auf Konformation und Aktivität der minimalen DEAD Box Helikase elF4A aus Saccharomyces cerevisiae. 2009, Doctoral Thesis, University of Basel, Faculty of Science.

Jungblut, Stefan Patrick. Coupling of adenine nucleotide binding and hydrolysis to single- and double-stranded DNA binding determines the topoisomerase activity of reverse gyrase from "Thermotoga maritima". 2009, Doctoral Thesis, University of Basel, Faculty of Science.

Linden, Martin Hubert. Die DEAD-box Helikase Hera aus "Thermus thermophilus". Untersuchung der Wechselwirkung mit Nukleinsäuren und der Helikaseaktivität. 2009, Doctoral Thesis, University of Basel, Faculty of Science.

Göttler, Thomas. Untersuchung der katalytischen Funktion der Gyrase aus "Bacillus subtilis" mit Einzelmolekül-Fluoreszenzspektroskopie. 2008, Doctoral Thesis, University of Basel, Faculty of Science.

Schätzle, Manuela. Properties of the free energy barriers for folding of the [alpha]-amylase inhibitor tendamistat. 2005, Doctoral Thesis, University of Basel, Faculty of Science.