CYANA Command: enoe reff: Difference between revisions

From CYANA Wiki
Jump to navigation Jump to search
No edit summary
 
(6 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[CYANA Commands|back to complete commands list]]


== Parameters ==
== Parameters ==


; b0field =''real'': (default: ''none'')
; b0field =''real'': (required)
; tauc =''real'': (default: ''none'')


== Description ==
== Description ==


This converts the calculated cross-correlation rates to distances.
This command converts the cross-relaxation rates to distances.  


There are two different approaches to determine spin-diffusion contributions to cross-peak buildups, both of which require PDB coordinates of a previously determined structure (a conventional NMR structure or an X-ray structure). Usually the lowest energy model of structure bundles is used for spin-diffusion calculation; however, averaging of spin-diffusion over individual conformers is possible, depending on how many structures were read, see
The parameter '''b0field''' is the field strength [MHz].
 
The parameter '''mode''' is used to select the spin diffusion correction method (FRM:1, TSS: 2).
For the full-matrix (FRM, mode=1) approach to spin-diffusion approximation we use the multi-spin Solomon equation to express the mixing time-dependence of the NOESY intensities. In the FRM approach, the buildup intensities containing spin-diffusion are calculated for all spins within the spheres centered at spins i and j (Orts et al. 2012).
 
 
In the TSS (TSS, mode=2) approach, we follow a strategy in which spin-diffusion contributions are obtained from the summed contributions of the exact solutions of three-spin systems ijk (Vögeli et al. 2010) for all neighboring spins k within the cross section of the spheres centered at spin i and j. Importantly, scaling the contribution to spin-diffusion from spin k by its protonation level allows the setting of individual, spin specific deuteration levels in sample specific manner corresponding i.e. to methyl-group specific labeling schemes, see
 
The parameter '''b0field''' is the field strength [MHz].
The parameter '''tauc''' is the overall correlation time [ns].
The parameter '''maxdist''' is the size of the spheres centered at spin i and j.
 
The parameter '''rmode''' is used to specify if experimental or simulated auto-relaxation (rho) values are used.
 
 
The parameter info=full or info=debug may be used to print the simulated buildup values to screen.

Latest revision as of 16:01, 11 September 2019

back to complete commands list

Parameters

b0field =real
(required)

Description

This command converts the cross-relaxation rates to distances.

The parameter b0field is the field strength [MHz].

Retrieved from "https://cyana.org/w/index.php?title=CYANA_Command:_enoe_reff&oldid=9672"