Highly selective and efficient water signal suppression is indispensable in biomolecular 2D nuclear Overhauser effect spectroscopy (NOESY) experiments. However, the application of conventional water suppression schemes can cause a significant or complete loss of the biomolecular resonances at and around the water chemical shift (Ï?2). In this study, a new sequence, NOESY-WaterControl, was developed to address this issue. The new sequence was tested on lysozyme and bovine pancreatic trypsin inhibitor (BPTI), demonstrating its efficiency in both water suppression and, more excitingly, preserving water-proximate biomolecular resonances in Ï?2. The 2D NOESY maps obtained using the new sequence thus provide more information than the maps obtained with conventional water suppression, thereby lessening the number of experiments needed to complete resonance assignments of biomolecules. The 2D NOESY-WaterControl map of BPTI showed strong bound water and exchangeable proton signals in Ï?1 but these signals were absent in Ï?2, indicating the possibility of using the new sequence to discriminate bound water and exchangeable proton resonances from non-labile proton resonances with similar chemical shifts to water.
[Question from NMRWiki Q&A forum] 1D NOESY with selective excitation and water suppression
1D NOESY with selective excitation and water suppression
Hi,
I am trying to collect 1D NOESY spectrum of a small protein in 90% H2O with selective excitation so I could follow a few NOEs without running a whole 2D experiment. Is there any sequence in Varian BioPack that I could use for that? I cannot achieve water suppression with the standard 'Noesy1D' sequence and all the other seem to not allow to selectively irradiate only one peak. Maybe it is just a matter of right parameters but I don't know how to set them properly - if so I will appreciate any advice.
Thanks
nmrlearner
News from other NMR forums
0
09-11-2013 09:15 PM
[Question from NMRWiki Q&A forum] what is best pulse sequence for c13 edit noesy on vnmrj ?
what is best pulse sequence for c13 edit noesy on vnmrj ?
Hi
What is best pulse sequence in bio pack on vnmrj for C-13 edit NOESY ? I am working with 12 kd size protein which can exist as homo dimers ( i.e total size of homo-dimer is 24 kd ). Most frequent problems we are encountering as follows !line broadening , baseline , phase correction problems ( huge signal at 2.8 ppm )in first increments and f2f3 planes huge strips errors !
Thanking you in advance !
nmrlearner
News from other NMR forums
0
01-10-2012 03:38 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
[Question from NMRWiki Q&A forum] Randomly duterated protein is useful to get noesy experments ?
Randomly duterated protein is useful to get noesy experments ?
Dear NMR WIKIers
I got doubt that can I use Randomly duterated protein (40 to 60 percent ) to get 3D (C13 EDIT and N15 EDIT) noesy experiments ? because if i duteriated the protein randomly the peak intensity drop would be there. but from standard formula NOE = 1/R6.
I am afraid of error from intensity drop .
could you please suggest any reference related to this ?
Thnaking you
nmrlearner
News from other NMR forums
0
10-03-2011 08:39 AM
[Question from NMRWiki Q&A forum] c13 filter noesy experment for homodimer protein
c13 filter noesy experment for homodimer protein
Dear wikiers
I would like to take c13 filter noesy experment for homodimer protein , total 20 kd size . could you please suggest which parameters should i consider more specificly while taking this experment to get best signal because i dont want to try on trial and error method. any knid of help is greatly appreciated
Thanking you in advance
Regards sri
nmrlearner
News from other NMR forums
0
06-30-2011 05:06 PM
[NMR paper] Simplification of protein NOESY spectra using bioorganic precursor synthesis and NMR
Simplification of protein NOESY spectra using bioorganic precursor synthesis and NMR spectral editing.
Related Articles Simplification of protein NOESY spectra using bioorganic precursor synthesis and NMR spectral editing.
J Am Chem Soc. 2004 May 5;126(17):5348-9
Authors: Lichtenecker R, Ludwiczek ML, Schmid W, Konrat R
A novel method is proposed for the analysis of protein NOEs in solution. In this approach, chemically synthesized precursor compounds for the amino acids valine, leucine, and isoleucine are used for amino acid specific labeling...
nmrlearner
Journal club
0
11-24-2010 09:51 PM
[NMR paper] Protein NMR structure determination with automated NOE-identification in the NOESY sp
Protein NMR structure determination with automated NOE-identification in the NOESY spectra using the new software ATNOS.
Related Articles Protein NMR structure determination with automated NOE-identification in the NOESY spectra using the new software ATNOS.
J Biomol NMR. 2002 Nov;24(3):171-89
Authors: Herrmann T, Güntert P, Wüthrich K
Novel algorithms are presented for automated NOESY peak picking and NOE signal identification in homonuclear 2D and heteronuclear-resolved 3D -NOESY spectra during de novo protein structure determination by NMR,...
nmrlearner
Journal club
0
11-24-2010 08:58 PM
[NMR paper] Proton NMR studies of a large protein. pH, substrate titrations, and NOESY experiment
Proton NMR studies of a large protein. pH, substrate titrations, and NOESY experiments with perdeuterated yeast phosphoglycerate kinase containing histidine residues.
Related Articles Proton NMR studies of a large protein. pH, substrate titrations, and NOESY experiments with perdeuterated yeast phosphoglycerate kinase containing histidine residues.
J Magn Reson B. 1994 Oct;105(2):157-66
Authors: Pappu KM, Serpersu EH
Fully deuterated yeast phosphoglycerate kinase (PGK) was prepared biosynthetically with only histidine side chains of normal...
NOESY-WaterControl: a new NOESY sequence for the observation of under-water protein resonances
Linear Mode
