Publication date: Available online 10 May 2018 Source:Methods
Author(s): Junji Iwahara, Levani Zandarashvili, Catherine A. Kemme, Alexandre Esadze
To perform their function, transcription factors and DNA-repair/modifying enzymes must first locate their targets in the vast presence of nonspecific, but structurally similar sites on genomic DNA. Before reaching their targets, these proteins stochastically scan DNA and dynamically move from one site to another on DNA. Solution NMR spectroscopy provides unique atomic-level insights into the dynamic DNA-scanning processes, which are difficult to gain by any other experimental means. In this review, we provide an introductory overview on the NMR methods for the structural, dynamic, and kinetic investigations of target DNA search by proteins. We also discuss advantages and disadvantages of these NMR methods over other methods such as single-molecule techniques and biochemical approaches.
[NMR paper] The C-terminal cytidine deaminase domain of APOBEC3G itself undergoes intersegmental transfer for a target search, as revealed by real-time NMR monitoring.
The C-terminal cytidine deaminase domain of APOBEC3G itself undergoes intersegmental transfer for a target search, as revealed by real-time NMR monitoring.
http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.rsc.org-images-entities-char_z_RSClogo.gif Related Articles The C-terminal cytidine deaminase domain of APOBEC3G itself undergoes intersegmental transfer for a target search, as revealed by real-time NMR monitoring.
Phys Chem Chem Phys. 2018 Jan 31;20(5):2976-2981
Authors: Kamba K, Nagata T, Katahira M
Abstract...
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[NMR paper] An Exhaustive Search Algorithm to Aid NMR-Based Structure Determination of Rotationally Symmetric Transmembrane Oligomers.
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Sci Rep. 2017 Dec 12;7(1):17373
Authors: Yang J, Piai A, Shen HB, Chou JJ
Abstract
Nuclear magnetic resonance (NMR) has been an important source of structural restraints for solving structures of oligomeric transmembrane domains (TMDs) of cell surface receptors and viral...
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[NMR paper] Solution NMR Spectroscopy in Target-Based Drug Discovery.
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Molecules. 2017 Aug 23;22(9):
Authors: Li Y, Kang C
Abstract
Solution NMR spectroscopy is a powerful tool to study protein structures and dynamics under physiological conditions. This technique is particularly useful in target-based drug discovery projects as it provides protein-ligand binding information in solution. Accumulated studies have shown that NMR will play more and more important...
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[NMR paper] Target-based whole-cell screening by ¹H NMR spectroscopy.
Target-based whole-cell screening by ¹H NMR spectroscopy.
http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--media.wiley.com-assets-7315-19-Wiley_FullText_120x30_orange.png http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--media.wiley.com-assets-7315-19-Wiley_FullText_120x30_orange.png http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.ncbi.nlm.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Target-based whole-cell screening by ¹H NMR spectroscopy.
Angew Chem Int Ed Engl. 2015...
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Site-Resolved Measurementof Microsecond-to-MillisecondConformational-Exchange Processes in Proteins by Solid-State NMR Spectroscopy
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Martin Tollinger, Astrid C. Sivertsen, Beat H. Meier, Matthias Ernst and Paul Schanda
http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja303591y/aop/images/medium/ja-2012-03591y_0005.gif
Journal of the American Chemical Society
DOI: 10.1021/ja303591y
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[NMR paper] NMR investigations of allosteric processes in a two-domain Thermus thermophilus Hsp70
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J Mol Biol. 2005 May 27;349(1):163-83
Authors: Revington M, Zhang Y, Yip GN, Kurochkin AV, Zuiderweg ER
Hsp70 chaperones are two-domain proteins that assist in intra-cellular protein (re) folding processes in all species. The protein folding activity of the substrate binding domain of the Hsp70s is regulated by...
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[NMR paper] NMR-based techniques in the hit identification and optimisation processes.
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Expert Opin Ther Targets. 2004 Dec;8(6):597-611
Authors: Pellecchia M, Becattini B, Crowell KJ, Fattorusso R, Forino M, Fragai M, Jung D, Mustelin T, Tautz L
In this review, the use of general NMR spectroscopy techniques to detect ligand binding and to monitor enzyme kinetics and inhibition, which appear particularly useful in hit identification and validation, is reiterated....
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[NMR thesis] Theoretical and experimental investigations in MEMS-based force detected NMR
Theoretical and experimental investigations in MEMS-based force detected NMR
Elgammal, Ramez Ahmed (2005) Theoretical and experimental investigations in MEMS-based force detected NMR. Dissertation (Ph.D.), California Institute of Technology. http://resolver.caltech.edu/CaltechETD:etd-02182006-145814
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NMR-based investigations into target DNA search processes of proteins
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