Induction of the tetracycline repressor: Characterization by molecular-dynamics simulations

Journal article

Publication Details

Author(s): Haberl F, Lanig H, Clark T
Journal: Proteins-Structure Function and Bioinformatics
Publisher: Wiley-Blackwell
Publication year: 2009
Volume: 77
Journal issue: 4
Pages range: 857-866
ISSN: 0887-3585


Extensive molecular-dynamics simulations show that the distance between the centers of gravity of the two equivalent helices 3 in the DNA-binding heads of the dimer of the tetracycline-repressor protein (TetR) cairn be used as a retiable diagnostic of induction. This is not, however, true for X-ray structures, but only for molecular-dynamics simulations. This is suggested to be because TetR is inherently flexible along the coordinate of the allosteric change (as is always likely to be the case for allosteric proteins), so that crystal-packing forces can determine the conformation of the protein. However, the time scale of the allosteric rearrangement in the absence of DNA-complexation is found to be of the order of tens of nanoseconds, so hat rearrangement can be observed reproducibly in 100 ns simulations. Metastable (pie-equilibrium) conformations of TetR have been observed for up to 60 ns. The likely equilibrium processes and key features of the TetR system are discussed. Proteins 2009; 77:857-866. (C) 2009 Wiley-Liss, Inc.

FAU Authors / FAU Editors

Clark, Timothy apl. Prof. Dr.
Lanig, Harald PD Dr.

How to cite

Haberl, F., Lanig, H., & Clark, T. (2009). Induction of the tetracycline repressor: Characterization by molecular-dynamics simulations. Proteins-Structure Function and Bioinformatics, 77(4), 857-866.

Haberl, Florian, Harald Lanig, and Timothy Clark. "Induction of the tetracycline repressor: Characterization by molecular-dynamics simulations." Proteins-Structure Function and Bioinformatics 77.4 (2009): 857-866.


Last updated on 2018-19-04 at 03:24