Publication date: Available online 3 September 2013 Source:Journal of Magnetic Resonance
Author(s): Hashim M. Al-Hashimi
Nucleic acid structures have to satisfy two diametrically opposite requirements; on one hand they have to adopt well-defined 3D structures that can be specifically recognized by proteins; on the other hand, their structures must be sufficiently flexible to undergo very large conformational changes that are required during key biochemical processes, including replication, transcription, and translation. How do nucleic acids introduce flexibility into their 3D structure without losing biological specificity? Here, I describe the development and application of NMR spectroscopic techniques in my laboratory for characterizing the dynamic properties of nucleic acids that tightly integrate a broad set of NMR measurements, including residual dipolar couplings, spin relaxation, and relaxation dispersion with sample engineering and computational approaches. This approach allowed us to obtain fundamental new insights into directional flexibility in nucleic acids that enable their structures to change in a very specific functional manner. Graphical abstract
[NMR paper] NMR studies on protein-nucleic acid interaction.
NMR studies on protein-nucleic acid interaction.
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J Biomol NMR. 2013 May 9;
Authors: Kaptein R
Abstract
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05-10-2013 07:03 PM
[KPWU blog] [PyMOL] different colors of nucleic acid rings
different colors of nucleic acid rings
The image above can be drew followed by steps in*my earlier post, which shows single color of the nucleotide rings and bonds. I saw a discussion list at PyMol forum today that an user requested a way to display different colors of the nucleotide rings. Below is the example image I tested (using PDB: 2WCC). http://stats.wordpress.com/b.gif?host=kpwu.wordpress.com&blog=76132&post=711&subd=kpwu&ref=&feed=1
Go to KPWU blog to read complete post.
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05-24-2012 05:54 PM
[NMR images] Nucleic acid and protein NMR
http://images.betterworldbooks.com/047/NMR-of-Proteins-and-Nucleic-Acids-9780471828938.jpg
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11/11/2011 8:27:59 AM GMT
Nucleic acid and protein NMR
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11-12-2011 01:40 AM
Specific Labeling of ThreonineMethyl Groups for NMR Studies of Protein–Nucleic Acid Complexes
Specific Labeling of ThreonineMethyl Groups for NMR Studies of Protein–Nucleic Acid Complexes
http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/bi201496d/aop/images/medium/bi-2011-01496d_0001.gif
Biochemistry
DOI: 10.1021/bi201496d
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11-04-2011 03:17 AM
The NMR restraints grid at BMRB for 5,266 protein and nucleic acid PDB entries
The NMR restraints grid at BMRB for 5,266 protein and nucleic acid PDB entries
Abstract Several pilot experiments have indicated that improvements in older NMR structures can be expected by applying modern software and new protocols (Nabuurs et al. in Proteins 55:483â??186, 2004; Nederveen et al. in Proteins 59:662â??672, 2005; Saccenti and Rosato in J Biomol NMR 40:251â??261, 2008). A recent large scale X-ray study also has shown that modern software can significantly improve the quality of X-ray structures that were deposited more than a few years ago (Joosten et al. in J. Appl...
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01-09-2011 12:46 PM
[NMR paper] NMR studies of protein-nucleic acid interactions.
NMR studies of protein-nucleic acid interactions.
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Methods Mol Biol. 2004;278:289-312
Authors: Varani G, Chen Y, Leeper TC
Protein-DNA and protein-RNA complexes play key functional roles in every living organism. Therefore, the elucidation of their structure and dynamics is an important goal of structural and molecular biology. Nuclear magnetic resonance (NMR) studies of protein and nucleic acid complexes have common features with studies of protein-protein complexes: the...
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11-24-2010 09:25 PM
[NMR paper] NMR - this other method for protein and nucleic acid structure determination.
NMR - this other method for protein and nucleic acid structure determination.
Related Articles NMR - this other method for protein and nucleic acid structure determination.
Acta Crystallogr D Biol Crystallogr. 1995 May 1;51(Pt 3):249-70
Authors: Wüthrich K
For a quarter of a century X-ray diffraction in single crystals was unique in its ability to solve three-dimensional structures of proteins and nucleic acids at atomic resolution. The situation changed in 1984 with the completion of a protein structure determination by nuclear magnetic...
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08-22-2010 03:41 AM
[NMR paper] NMR studies of protein-nucleic acid complexes: structures, solvation, dynamics and co
NMR studies of protein-nucleic acid complexes: structures, solvation, dynamics and coupled protein folding.
Related Articles NMR studies of protein-nucleic acid complexes: structures, solvation, dynamics and coupled protein folding.
Q Rev Biophys. 1999 Feb;32(1):57-98
Authors: Härd T