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RCI - Random Coil Index for predicting protein flexibility from chemical shifts
RCI website
RCI method predicts protein flexibility by calculating the Random Coil Index from backbone chemical shifts and predicting values of model-free order parameters as well as per-residue RMSF of NMR and MD ensembles from the Random Coil Index.
The key advantages of this protocol over existing methods of studying protein flexibility are (i) it does not require prior knowledge of a protein's tertiary structure, (ii) it is not sensitive to the protein's overall tumbling and (iii) it does not require additional NMR measurements beyond the standard experiments for backbone...
markber
NMR software
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02-02-2012 11:36 PM
[NMR paper] A solid-state NMR index of helical membrane protein structure and topology.
A solid-state NMR index of helical membrane protein structure and topology.
Related Articles A solid-state NMR index of helical membrane protein structure and topology.
J Magn Reson. 2000 May;144(1):150-5
Authors: Marassi FM, Opella SJ
The secondary structure and topology of membrane proteins can be described by inspection of two-dimensional (1)H-(15)N dipolar coupling/(15)N chemical shift polarization inversion spin exchange at the magic angle spectra obtained from uniformly (15)N-labeled samples in oriented bilayers. The characteristic...
nmrlearner
Journal club
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11-18-2010 09:15 PM
[NMR paper] H-NMR signal of Arenicola marina myoglobin in vivo as an index of tissue oxygenation.
H-NMR signal of Arenicola marina myoglobin in vivo as an index of tissue oxygenation.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif Related Articles H-NMR signal of Arenicola marina myoglobin in vivo as an index of tissue oxygenation.
Eur J Biochem. 1996 Feb 1;235(3):622-8
Authors: Kreutzer U, Jue T
Key questions on how intertidal animals adapt to hypoxic stress center on the high energy phosphate response to decreasing oxygenation. With recent...
nmrlearner
Journal club
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08-22-2010 02:27 PM
[NMR paper] Observing the 1H NMR signal of the myoglobin Val-E11 in myocardium: an index of cellu
Observing the 1H NMR signal of the myoglobin Val-E11 in myocardium: an index of cellular oxygenation.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Observing the 1H NMR signal of the myoglobin Val-E11 in myocardium: an index of cellular oxygenation.
Proc Natl Acad Sci U S A. 1992 May 15;89(10):4731-3
Authors: Kreutzer U, Wang DS, Jue T
The 1H NMR signal from oxymyoglobin, a low-concentration diamagnetic protein, is visible in myocardial tissue. The methyl...
Application of the random coil index to studying protein flexibility
Application of the random coil index to studying protein flexibility
Mark V. Berjanskii and David S. Wishart
Journal of Biomolecular NMR; 2008; 40(1); pp 31-48
Abstract:
Protein flexibility lies at the heart of many protein–ligand binding events and enzymatic activities. However, the experimental measurement of protein motions is often difficult, tedious and error-prone. As a result, there is a considerable interest in developing simpler and faster ways of quantifying protein flexibility. Recently, we described a method, called Random Coil Index (RCI), which appears to be able to...
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