Difference between revisions of "NS CPMG 2-site expanded"

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This type of model can be called '''silico''' derived, as it is a computer-assisted derivation for the equivalent computations, of the much more expensive numerical matrix-form.
 
This type of model can be called '''silico''' derived, as it is a computer-assisted derivation for the equivalent computations, of the much more expensive numerical matrix-form.
 +
 +
This function is exact, just as the explicit Bloch-McConnell numerical treatments.  It comes from a Maple derivation based on the Bloch-McConnell equations.  It is much faster than the numerical Bloch-McConnell solution.  It was derived by Nikolai Skrynnikov and is provided with his permission.
  
 
== Parameters ==
 
== Parameters ==
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* Tollinger, M., Skrynnikov, N. R., Mulder, F. A. A., Forman-Kay, J. D., and Kay, L. E. (2001). Slow dynamics in folded and unfolded states of an sh3 domain. ''J. Am. Chem. Soc.'', '''123'''(46), 11341-11352. ([http://dx.doi.org/10.1021/ja011300z 10.1021/ja011300z]).
 
* Tollinger, M., Skrynnikov, N. R., Mulder, F. A. A., Forman-Kay, J. D., and Kay, L. E. (2001). Slow dynamics in folded and unfolded states of an sh3 domain. ''J. Am. Chem. Soc.'', '''123'''(46), 11341-11352. ([http://dx.doi.org/10.1021/ja011300z 10.1021/ja011300z]).
 
 
This function is exact, just as the explicit Bloch-McConnell numerical treatments.  It comes from a Maple derivation based on the Bloch-McConnell equations.  It is much faster than the numerical Bloch-McConnell solution.  It was derived by Nikolai Skrynnikov and is provided with his permission.
 
  
 
== Code origin ==
 
== Code origin ==

Revision as of 19:35, 5 August 2014

Intro

The relaxation dispersion model for the numeric solution (NS) to the Bloch-McConnell equations for SQ CPMG-type data. This uses the Maple expanded and fast equations from Nikolai Skrynnikov. The model is labelled as NS CPMG 2-site expanded in relax.

This type of model can be called silico derived, as it is a computer-assisted derivation for the equivalent computations, of the much more expensive numerical matrix-form.

This function is exact, just as the explicit Bloch-McConnell numerical treatments. It comes from a Maple derivation based on the Bloch-McConnell equations. It is much faster than the numerical Bloch-McConnell solution. It was derived by Nikolai Skrynnikov and is provided with his permission.

Parameters

The NS CPMG 2-site expanded model has the parameters {$R_2^0$, $...$, $p_A$, $\Delta\omega$, $k_{ex}$}.

Code

The library code.
http://svn.gna.org/viewcvs/*checkout*/relax/trunk/lib/dispersion/ns_cpmg_2site_expanded.py?revision=HEAD

Reference

The reference for the NS CPMG 2-site expanded model is:

  • Tollinger, M., Skrynnikov, N. R., Mulder, F. A. A., Forman-Kay, J. D., and Kay, L. E. (2001). Slow dynamics in folded and unfolded states of an sh3 domain. J. Am. Chem. Soc., 123(46), 11341-11352. (10.1021/ja011300z).

Code origin

The code originates as optimization function number 5 from the fitting_main_kex.py script from Mathilde Lescanne, Paul Schanda, and Dominique Marion (see U{http://thread.gmane.org/gmane.science.nmr.relax.devel/4138}, U{https://gna.org/task/?7712#comment2} and U{https://gna.org/support/download.php?file_id=18262}).

Links to the copyright licensing agreements from all authors are:

  1. Nikolai Skrynnikov, U{http://article.gmane.org/gmane.science.nmr.relax.devel/4279},
  2. Martin Tollinger, U{http://article.gmane.org/gmane.science.nmr.relax.devel/4276},
  3. Paul Schanda, U{http://article.gmane.org/gmane.science.nmr.relax.devel/4271},
  4. Mathilde Lescanne, U{http://article.gmane.org/gmane.science.nmr.relax.devel/4138},
  5. Dominique Marion, U{http://article.gmane.org/gmane.science.nmr.relax.devel/4157}.

Links

The implementation of the NS CPMG 2-site expanded model in relax can be seen in the:

See also