Hi everybody I am trying to simplify my assignment process: For this I would like to use a 2D projection from a 3D NOESY where I can easily pick and assign and
Peak height versus peak volume
Given a standard NOESY-based protein structure determination: Does anyone have any information on the benefits of measuring peak intensity by a volume integration method rather than simply measuring the peak height.
Obviously integration is theoretically more accurate, but does it make any difference to the quality of the structures produced? especially if peak lineshapes are comparable?
I was hoping to find some study comparing structures produced by both methods.....
I'm also curious about the benefits of distance-calbrating NOEs to a curve rather than simply putting restraints...
paul
NMR Questions and Answers
3
09-15-2015 07:48 PM
[Question from NMRWiki Q&A forum] Auto peak picking of N15Edit NOESY and C13 Edit NOESY spectrum
Auto peak picking of N15Edit NOESY and C13 Edit NOESY spectrum
Dear friends,
I am in process of doing structure calculation of a dimeric protein. The problem I faced is regarding the assignment of N15Edit NOESY and C13 Edit NOESY spectrum.I have already processed the fid data and converted to sparky ucsf format. Is there options available in sparky for auto peak picking, integration and assignment of my NOESY spectrum? And second query is regarding the generation of input files for structure calculation. In our Lab we are using ARIA 2.1 software for structure calculation? Is there any...
nmrlearner
News from other NMR forums
0
12-14-2011 07:14 PM
A simplified recipe for assigning amide NMR signals using combinatorial (14)N amino acid inverse-labeling.
A simplified recipe for assigning amide NMR signals using combinatorial (14)N amino acid inverse-labeling.
A simplified recipe for assigning amide NMR signals using combinatorial (14)N amino acid inverse-labeling.
J Struct Funct Genomics. 2011 Aug 25;
Authors: Hiroaki H, Umetsu Y, Nabeshima YI, Hoshi M, Kohda D
Abstract
Assignment of backbone amide proton resonances is one of the most time-consuming stages of any protein NMR study when the protein samples behave non-ideally. A robust and convenient NMR procedure for analyzing spectra of...
nmrlearner
Journal club
0
08-26-2011 04:22 PM
[NMRpipe Yahoo group] Problem peak-picking 3D spectra
Problem peak-picking 3D spectra
Hello All, I've been trying to run the automated peak detection, but I've run into some difficulty. Picking a slice from a 3D spectrum works without problems,
More...
NMRpipe Yahoo group news
News from other NMR forums
0
05-27-2011 10:40 AM
[NMR analysis blog] Intelligent Peak Picking of 1D NMR Spectra
Intelligent Peak Picking of 1D NMR Spectra
In case you hadn´t noticed, version 7 of Mnova was released just a few days ago.
Whilst this new version presents a number of significant improvements in the software, in this post I would like to focus on a new peak picking concept which, to the best of my knowledge, is novel and in some way, revolutionary. I will try to keep this as short and clear as possible, just to illustrate the very basic ideas that motivated this new approach to peak picking. In the next posts I will elaborate further on some of the new points introduced here.
...
nmrlearner
News from NMR blogs
0
05-16-2011 08:23 PM
(13)C Spin Dilution for Simplified and Complete Solid-State NMR Resonance Assignment of Insoluble Biological Assemblies.
(13)C Spin Dilution for Simplified and Complete Solid-State NMR Resonance Assignment of Insoluble Biological Assemblies.
(13)C Spin Dilution for Simplified and Complete Solid-State NMR Resonance Assignment of Insoluble Biological Assemblies.
J Am Chem Soc. 2011 Mar 14;
Authors: Loquet A, Lv G, Giller K, Becker S, Lange A
A strategy for simplified and complete resonance assignment of insoluble and noncrystalline proteins by solid-state NMR (ssNMR) spectroscopy is presented. Proteins produced with - or glucose are very sparsely labeled, and the...
nmrlearner
Journal club
0
03-16-2011 04:15 PM
13C Spin Dilution for Simplified and Complete Solid-State NMR Resonance Assignment of Insoluble Biological Assemblies
13C Spin Dilution for Simplified and Complete Solid-State NMR Resonance Assignment of Insoluble Biological Assemblies
Antoine Loquet, Guohua Lv, Karin Giller, Stefan Becker and Adam Lange
http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja200066s/aop/images/medium/ja-2011-00066s_0006.gif
Journal of the American Chemical Society
DOI: 10.1021/ja200066s
http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA
http://feeds.feedburner.com/~r/acs/jacsat/~4/aFxzgJtJWtI
nmrlearner
Journal club
0
03-15-2011 05:56 AM
[NMR paper] Automated peak picking and peak integration in macromolecular NMR spectra using AUTOP
Automated peak picking and peak integration in macromolecular NMR spectra using AUTOPSY.
Related Articles Automated peak picking and peak integration in macromolecular NMR spectra using AUTOPSY.
J Magn Reson. 1998 Dec;135(2):288-97
Authors: Koradi R, Billeter M, Engeli M, Güntert P, Wüthrich K
A new approach for automated peak picking of multidimensional protein NMR spectra with strong overlap is introduced, which makes use of the program AUTOPSY (automated peak picking for NMR spectroscopy). The main elements of this program are a novel...
nmrpipe peak picking simplified
Linear Mode
