Kinetics of TmHU binding to DNA as observed by optical tweezers

2007 ◽  
Vol 70 (11) ◽  
pp. 938-943 ◽  
Author(s):  
Mathias Salomo ◽  
Ulrich F. Keyser ◽  
Kati Kegler ◽  
Christof Gutsche ◽  
Marc Struhalla ◽  
...  
Keyword(s):  
Optical Tweezers ◽  
Kinetics Of

scholarly journals A thermodynamic model of bacterial transcription

2021 ◽  
Author(s):  
Jin Qian ◽  
David Dunlap ◽  
Laura Finzi
Keyword(s):  
Transcription Factor ◽  
Optical Tweezers ◽  
Thermodynamic Model ◽  
Reaction Pathways ◽  
Rna Structures ◽  
Nascent Transcript ◽  
Bacterial Transcription ◽  
Transcriptional Pausing ◽  
Template Dna ◽  
Kinetics Of

Transcriptional pausing is highly regulated by the template DNA and nascent transcript sequences. Here, we propose a thermodynamic model of transcriptional pausing, based on the thermal energy of transcription bubbles and nascent RNA structures, to describe the kinetics of the reaction pathways between active translocation, intermediate, backtracked, and hairpin-stabilized pauses. The model readily predicts experimentally detected pauses in high-resolution optical tweezers measurements of transcription. Unlike other models, it also predicts the effect of tension and the GreA transcription factor on pausing.

scholarly journals Dynamics of Individual Molecular Shuttles Under Mechanical Force

2018 ◽  
Author(s):  
Teresa Naranjo ◽  
Kateryna Lemishko ◽  
Sara de Lorenzo ◽  
Alvaro Somoza ◽  
Felix Ritort ◽  
...  
Keyword(s):  
Real Time ◽  
Optical Tweezers ◽  
Mechanical Force ◽  
Equilibrium Conditions ◽  
The Real ◽  
Physiological Conditions ◽  
Molecular Shuttles ◽  
And Control ◽  
Kinetics Of

Here, we exploit the high force (0.1 pN), spatial (1 nm) and temporal (1 kHz) resolutions of optical tweezers<a href="#_ENREF_4"><sup></sup></a><sup></sup><a href="#_ENREF_11"><sup></sup></a> to quantify and control mechanically the real-time kinetics of individual synthetic molecular shuttles operating at near-physiological conditions, for several hundreds of switching cycles, near equilibrium conditions.

Load-dependent kinetics of force production by smooth muscle myosin measured with optical tweezers

2003 ◽  
Vol 5 (11) ◽  
pp. 980-986 ◽  
Author(s):  
Claudia Veigel ◽  
Justin E. Molloy ◽  
Stephan Schmitz ◽  
John Kendrick-Jones
Keyword(s):  
Smooth Muscle ◽  
Optical Tweezers ◽  
Force Production ◽  
Smooth Muscle Myosin ◽  
Muscle Myosin ◽  
Kinetics Of

scholarly journals Stepwise membrane binding of the C2 domains of the extended synaptotagmins revealed by optical tweezers

2021 ◽  
Author(s):  
Jinghua Ge ◽  
Xin Bian ◽  
Lu Ma ◽  
Yiying Cai ◽  
Yanghui Li ◽  
...  
Keyword(s):  
Optical Tweezers ◽  
Membrane Binding ◽  
Binding Energies ◽  
Dependent Manner ◽  
C2 Domains ◽  
Binding Domains ◽  
Lipid Exchange ◽  
Membrane Contacts ◽  
Kinetics Of

Abstract Extended synaptotagmins (E-Syts) mediate lipid exchange between the endoplasmic reticulum (ER) and the plasma membrane (PM). Anchored on ER, E-Syts bind the PM via an array of C2 domains in a Ca2+- and lipid-dependent manner, drawing the two membranes close to facilitate lipid exchange. How these C2 domains bind the PM and regulate the ER-PM distance have not been well understood. Here, we applied optical tweezers to dissect PM membrane binding by E-Syt1 and E-Syt2. We detected Ca2+- and lipid-dependent membrane binding kinetics of both E-Syts and determined the binding energies and rates of individual C2 domains or pairs. We incorporated these parameters in a theoretical model to recapitulate various properties of E-Syt-mediated membrane contacts observed in vivo, including their equilibrium distances and probabilities. Our methods can be applied to study other proteins containing multiple membrane-binding domains linked by disordered polypeptides.

scholarly journals Dynamics of Individual Molecular Shuttles Under Mechanical Force

2018 ◽  
Author(s):  
Teresa Naranjo ◽  
Kateryna Lemishko ◽  
Sara de Lorenzo ◽  
Alvaro Somoza ◽  
Felix Ritort ◽  
...  
Keyword(s):  
Real Time ◽  
Optical Tweezers ◽  
Mechanical Force ◽  
Equilibrium Conditions ◽  
The Real ◽  
Physiological Conditions ◽  
Molecular Shuttles ◽  
And Control ◽  
Kinetics Of

Here, we exploit the high force (0.1 pN), spatial (1 nm) and temporal (1 kHz) resolutions of optical tweezers<a href="#_ENREF_4"><sup></sup></a><sup></sup><a href="#_ENREF_11"><sup></sup></a> to quantify and control mechanically the real-time kinetics of individual synthetic molecular shuttles operating at near-physiological conditions, for several hundreds of switching cycles, near equilibrium conditions.

Kinetics of DNA translocase SpoIIIE studied by dual optical tweezers

2009 ◽  
Author(s):  
Lin Ling ◽  
E Qu ◽  
Honglian Guo ◽  
Chunhua Xu ◽  
Zhaolin Li ◽  
...  
Keyword(s):  
Optical Tweezers ◽  
Kinetics Of ◽  
Dna Translocase

scholarly journals Folding-Unfolding Kinetics of Skeletal-Muscle Titin Molecules Explored with Force-Clamp Optical Tweezers

2012 ◽  
Vol 102 (3) ◽  
pp. 577a
Author(s):  
Zsolt Martonfalvi ◽  
Pasquale Bianco ◽  
Miklos Kellermayer
Keyword(s):  
Skeletal Muscle ◽  
Optical Tweezers ◽  
Force Clamp ◽  
Unfolding Kinetics ◽  
Kinetics Of
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