scholarly journals Conformational and Intermolecular Interaction Dynamics of Photolyase/Cryptochrome Proteins Monitored by the Time-Resolved Diffusion Technique

2017 ◽  
Vol 93 (1) ◽  
pp. 15-25 ◽  
Author(s):  
Masato Kondoh ◽  
Masahide Terazima
Keyword(s):  
Intermolecular Interaction ◽  
Time Resolved ◽  
Interaction Dynamics ◽  
Diffusion Technique

scholarly journals A Time-Resolved Diffusion Technique for Detection of the Conformational Changes and Molecular Assembly/Disassembly Processes of Biomolecules

2021 ◽  
Vol 12 ◽  
Author(s):  
Yusuke Nakasone ◽  
Masahide Terazima
Keyword(s):  
Intermolecular Interaction ◽  
Conformational Changes ◽  
Molecular Mechanisms ◽  
Dna Interaction ◽  
Molecular Assembly ◽  
Kinetic Measurements ◽  
Time Resolved ◽  
Molecular Events ◽  
Diffusion Technique ◽  
Sensor Proteins

Biological liquid–liquid phase separation (LLPS) is driven by dynamic and multivalent interactions, which involves conformational changes and intermolecular assembly/disassembly processes of various biomolecules. To understand the molecular mechanisms of LLPS, kinetic measurements of the intra- and intermolecular reactions are essential. In this review, a time-resolved diffusion technique which has a potential to detect molecular events associated with LLPS is presented. This technique can detect changes in protein conformation and intermolecular interaction (oligomer formation, protein-DNA interaction, and protein-lipid interaction) in time domain, which are difficult to obtain by other methods. After the principle and methods for signal analyses are described in detail, studies on photoreactive molecules (intermolecular interaction between light sensor proteins and its target DNA) and a non-photoreactive molecule (binding and folding reaction of α-synuclein upon mixing with SDS micelle) are presented as typical examples of applications of this unique technique.

Time-Resolved Diffusion Technique to Probe Protein-Drug Interaction

2018 ◽  
Author(s):  
Masahide Terazima ◽  
Akira Takakado ◽  
Yusuke Nakasone
Keyword(s):  
Drug Interaction ◽  
Protein Drug ◽  
Time Resolved ◽  
Diffusion Technique

Substrate interaction dynamics and oxygen control in the active site of thymidylate synthase ThyX

2014 ◽  
Vol 459 (1) ◽  
pp. 37-45 ◽  
Author(s):  
Hubert F. Becker ◽  
Kamel Djaout ◽  
Isabelle Lamarre ◽  
Jonathan E. Ulmer ◽  
Delphine Schaming ◽  
...  
Keyword(s):  
Thymidylate Synthase ◽  
Active Site ◽  
Oxidase Activity ◽  
Pathogenic Bacteria ◽  
Oxygen Control ◽  
Time Resolved ◽  
Time Resolved Spectroscopy ◽  
Substrate Interaction ◽  
Interaction Dynamics

Thymidylate synthase ThyX is required for synthesis of thymine in many pathogenic bacteria. Using time-resolved spectroscopy of the flavin cofactor, we unravelled the interplay between the three native substrates and show how harmful oxidase activity is avoided in aerobic environments.

Comparison between pyrrolidinium-based and imidazolium-based dicationic ionic liquids: intermolecular interaction, structural organization, and solute dynamics

2021 ◽  
Vol 23 (37) ◽  
pp. 21029-21041
Author(s):  
Amita Mahapatra ◽  
Manjari Chakraborty ◽  
Sahadev Barik ◽  
Moloy Sarkar
Keyword(s):  
Ionic Liquids ◽  
Steady State ◽  
Nmr Spectroscopy ◽  
Intermolecular Interaction ◽  
Structural Organization ◽  
Time Resolved Fluorescence ◽  
Time Resolved ◽  
Dicationic Ionic Liquids ◽  
The Difference ◽  
Solute Dynamics

This work investigates the difference in the microscopic behaviour of imidazolium and pyrrolidinium based ILs employing combined steady state and time-resolved fluorescence, EPR and NMR spectroscopy.

Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra

2020 ◽  
Vol 22 (11) ◽  
pp. 6247-6259 ◽  
Author(s):  
Yamanappa Hunashal ◽  
Cristina Cantarutti ◽  
Sofia Giorgetti ◽  
Loredana Marchese ◽  
Henriette Molinari ◽  
...  
Keyword(s):  
Intermolecular Interaction ◽  
Nmr Spectra ◽  
Protein Nmr ◽  
Surface Mapping ◽  
Interaction Dynamics ◽  
Exchange Processes ◽  
Paramagnetic Probes

The effects induced by extrinsic paramagnetic probes on protein NMR spectra, widely used for surface mapping, can also be exploited to detect the sites of slow and intermediate exchange due to structural or intermolecular interaction dynamics.

scholarly journals 3P240 Time-resolved study on the intermolecular interaction change in the signal transduction of LOV protein YtvA(18A. Photobiology: Vision & Photoreception,Poster)

2013 ◽  
Vol 53 (supplement1-2) ◽  
pp. S251
Author(s):  
Seokwoo Choi ◽  
Yusuke Nakasone ◽  
Klaas Hellingwerf ◽  
Masahide Terazima
Keyword(s):  
Signal Transduction ◽  
Intermolecular Interaction ◽  
Time Resolved ◽  
Interaction Change

scholarly journals Nanomedical Relevance of the Intermolecular Interaction Dynamics—Examples from Lysozymes and Insulins

ACS Omega ◽  
2019 ◽  
Vol 4 (2) ◽  
pp. 4206-4220 ◽  
Author(s):  
Ruiyan Zhang ◽  
Ning Zhang ◽  
Marzieh Mohri ◽  
Lisha Wu ◽  
Thomas Eckert ◽  
...  
Keyword(s):  
Intermolecular Interaction ◽  
Interaction Dynamics
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