NS R1rho 2-site - Revision history

Bugman: /* See also */

2015-11-06T16:47:14Z

2015-11-03T17:44:45Z

References: Switched to a labelled section transclusion for the citations.

2015-11-03T11:54:01Z

Switched to parameter templates.

2015-11-03T11:52:07Z

Use of the <math> tags

2015-10-15T14:14:53Z

Removed the =intro= sectioning for better page formatting and use in the 'Did you know...' section of the main page.

2014-11-26T13:17:08Z

Links: Updated the HTML manual link.

2014-09-11T08:00:20Z

Category link updates for the specific analyses.

2014-09-07T21:16:18Z

Equation

2014-09-07T21:15:33Z

Equation

2014-05-03T11:00:39Z

← Older revision		Revision as of 16:47, 6 November 2015
Line 72:		Line 72:

	== See also ==		== See also ==
		+	[[Category:Models]]
		+	[[Category:Dispersion models]]
	[[Category:Relaxation dispersion analysis]]		[[Category:Relaxation dispersion analysis]]

@@ Line 62: / Line 62: @@
 The reference for the NS R1rho 2-site model is:
-* Korzhnev, D. M., Orekhov, V. Y., and Kay, L. E. (2005). Off-resonance R(1rho) NMR studies of exchange dynamics in proteins with low spin-lock fields: an application to a Fyn SH3 domain. ''J. Am. Chem. Soc.'', '''127'''(2), 713-721. ([http://dx.doi.org/10.1021/ja0446855 10.1021/ja0446855]).
+* {{#lst:Citations|Korzhnev05b}}
 == Links ==

@@ Line 5: / Line 5: @@
 This is the numerical model for 2-site exchange using 3D magnetisation vectors.
 It is selected by setting the model to '''NS R1rho 2-site'''.
-The simple constraint $\textrm{p}_\textrm{A} > \textrm{p}_\textrm{B}$ is used to halve the optimisation space, as both sides of the limit are mirror image spaces.
+The simple constraint {{:pA}} > {{:pB}} is used to halve the optimisation space, as both sides of the limit are mirror image spaces.
 For this model, the equations from Korzhnev05 have been used.
-The $\mathrm{R}_{1\rho}$ value for state A magnetisation is defined as
+The {{:R1rho}} value for state A magnetisation is defined as
 <math>
@@ Line 41: / Line 41: @@
 === Essentials ===
-It is essential to read in $R_{1}$ values before starting a calculation:
+It is essential to read in {{:R1}} values before starting a calculation:
 <source lang="python">
 relax_data.read(ri_id='R1', ri_type='R1', frq=cdp.spectrometer_frq_list[0], file='R1_values.txt', mol_name_col=1, res_num_col=2, res_name_col=3, spin_num_col=4, spin_name_col=5, data_col=6, error_col=7)
@@ Line 56: / Line 56: @@
 == Parameters ==
-The NS R1rho 2-site model has the parameters {$R_{1\rho}'$, $...$, $p_A$, $\Delta\omega$, $k_{ex}$}.
+The NS R1rho 2-site model has the parameters {{{:R1rhoprime}}, ..., {{:pA}}, {{:Deltaomega}}, {{:kex}}}.
 == Reference ==

@@ Line 9: / Line 9: @@
 For this model, the equations from Korzhnev05 have been used.
 The $\mathrm{R}_{1\rho}$ value for state A magnetisation is defined as
 \begin{equation}
      \mathrm{R}_{1\rho} = - \frac{1}{T_\textrm{relax}}  \cdot \ln \left( M_0^T \cdot e^{R \cdot T_\textrm{relax}} \cdot M_0 \right),
 \end{equation}
 where
 \begin{align}
      M_0    &= \begin{pmatrix} \sin{\theta} \\ 0 \\ \cos{\theta} \\ 0 \\ 0 \\ 0  \end{pmatrix}, \\
      \theta &= \arctan \left( \frac{\omega_1}{\Omega_\textrm{A}} \right).
 \end{align}
 The relaxation evolution matrix is defined as
 \begin{equation}
      R = \begin{pmatrix}
@@ Line 30: / Line 38: @@
          \end{pmatrix},
 \end{equation}
 === Essentials ===

← Older revision		Revision as of 14:14, 15 October 2015
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−	~~= Intro =~~
	The relaxation dispersion model for the numeric solution (NS) to the Bloch-McConnell equations for 2-site exchange for [[R1rho-type data]]. This model is labelled as '''NS R1rho 2-site''' in [[Relaxation dispersion citation for relax\|relax]].		The relaxation dispersion model for the numeric solution (NS) to the Bloch-McConnell equations for 2-site exchange for [[R1rho-type data]]. This model is labelled as '''NS R1rho 2-site''' in [[Relaxation dispersion citation for relax\|relax]].

@@ Line 59: / Line 59: @@
 The [[Relaxation dispersion citation for relax|implementation of the NS R1rho 2-site model in relax]] can be seen in the:
-* [http://www.nmr-relax.com/manual/NS_2_site_R1_model.html relax manual],
+* [http://www.nmr-relax.com/manual/The_NS_2_site_R1_rho_model.html relax manual],
 * [http://www.nmr-relax.com/api/3.1/lib.dispersion.ns_r1rho_2site-module.html API documentation],
 * [http://www.nmr-relax.com/analyses/relaxation_dispersion.html#NS_R1rho_2-site relaxation dispersion page of the relax website].

← Older revision		Revision as of 08:00, 11 September 2014
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	== See also ==		== See also ==
−	[[Category:~~Relaxation_dispersion~~]]	+	[[Category:Relaxation dispersion analysis]]

← Older revision		Revision as of 11:00, 3 May 2014
Line 1:		Line 1:
		+	= Intro =
	The relaxation dispersion model for the numeric solution (NS) to the Bloch-McConnell equations for 2-site exchange for [[R1rho-type data]]. This model is labelled as '''NS R1rho 2-site''' in [[Relaxation dispersion citation for relax\|relax]].		The relaxation dispersion model for the numeric solution (NS) to the Bloch-McConnell equations for 2-site exchange for [[R1rho-type data]]. This model is labelled as '''NS R1rho 2-site''' in [[Relaxation dispersion citation for relax\|relax]].