Related ArticlesProtein structural class identification directly from NMR spectra using averaged chemical shifts.
Bioinformatics. 2003 Nov 1;19(16):2054-64
Authors: Mielke SP, Krishnan VV
Knowledge of the three-dimensional structure of proteins is integral to understanding their functions, and a necessity in the era of proteomics. A wide range of computational methods is employed to estimate the secondary, tertiary, and quaternary structures of proteins. Comprehensive experimental methods, on the other hand, are limited to nuclear magnetic resonance (NMR) and X-ray crystallography. The full characterization of individual structures, using either of these techniques, is extremely time intensive. The demands of high throughput proteomics necessitate the development of new, faster experimental methods for providing structural information. As a first step toward such a method, we explore the possibility of determining the structural classes of proteins directly from their NMR spectra, prior to resonance assignment, using averaged chemical shifts. This is achieved by correlating NMR-based information with empirical structure-based information available in widely used electronic databases. The results are analyzed statistically for their significance. The robustness of the method as a structure predictor is probed by applying it to a set of proteins of unknown structure. Our results show that this NMR-based method can be used as a low-resolution tool for protein structural class identification.
[NMRpipe Yahoo group] Re: Baseline issues in directly detected proton dimension of 13C-HSQ
Re: Baseline issues in directly detected proton dimension of 13C-HSQ
Hi Justin, This sensitivity enhanced experiment usually achieves good water suppression, but you could try removing some of the water with a polynomial solvent
More...
NMRpipe Yahoo group news
News from other NMR forums
0
07-13-2011 08:31 PM
Affymetrix launches NG Class detergents for better protein analysis - Pharmaceutical Business Review
<img alt="" height="1" width="1" />
Affymetrix launches NG Class detergents for better protein analysis
Pharmaceutical Business Review
Affymetrix chief commercial officer Andy Last said the new NG Class Detergents give biologists enhanced tools to solve the structure of membrane proteins using advanced techniques, such as nuclear magnetic resonance and X-ray diffraction. ...
and more »
Affymetrix launches NG Class detergents for better protein analysis - Pharmaceutical Business Review
More...
nmrlearner
Online News
0
02-15-2011 09:29 PM
[NMR paper] Signal identification in NMR spectra with coupled evolution periods.
Signal identification in NMR spectra with coupled evolution periods.
Related Articles Signal identification in NMR spectra with coupled evolution periods.
J Magn Reson. 2005 Sep;176(1):47-53
Authors: Malmodin D, Billeter M
Novel multidimensional NMR experiments rely on modified time-domain sampling schemes to provide significant savings of experimental time. Several approaches are based on the coupling of evolution times resulting in a reduction of the dimensionality of the recorded spectra, and a concomitant saving of experimental time. We...
nmrlearner
Journal club
0
12-01-2010 06:56 PM
[NMR paper] NMR identification of local structural preferences in HIV-1 protease tethered heterod
NMR identification of local structural preferences in HIV-1 protease tethered heterodimer in 6 M guanidine hydrochloride.
Related Articles NMR identification of local structural preferences in HIV-1 protease tethered heterodimer in 6 M guanidine hydrochloride.
FEBS Lett. 2001 Dec 7;509(2):218-24
Authors: Bhavesh NS, Panchal SC, Mittal R, Hosur RV
Understanding protein folding requires complete characterization of all the states of the protein present along the folding pathways. For this purpose nuclear magnetic resonance (NMR) has proved to be...
nmrlearner
Journal club
0
11-19-2010 08:44 PM
[NMR paper] NMR study on the interaction between MHC class I protein and its antigen peptide.
NMR study on the interaction between MHC class I protein and its antigen peptide.
Related Articles NMR study on the interaction between MHC class I protein and its antigen peptide.
Biochem Biophys Res Commun. 2000 Nov 30;278(3):609-13
Authors: Nakagawa M, Chiba-Kamoshida K, Udaka K, Nakanishi H
A major histcompatibility complex (MHC) class I protein H-2K(b) was expressed in a large scale as a fusion protein with thioredoxin and hexahistidine at the N-terminus to analyze the interaction with the antigen peptide SIYRYYGL. NMR spectra of the...
nmrlearner
Journal club
0
11-19-2010 08:29 PM
[NMR paper] Solid-state (13)C CP MAS NMR spectroscopy of mushrooms gives directly the ratio betwe
Solid-state (13)C CP MAS NMR spectroscopy of mushrooms gives directly the ratio between proteins and polysaccharides.
Related Articles Solid-state (13)C CP MAS NMR spectroscopy of mushrooms gives directly the ratio between proteins and polysaccharides.
J Agric Food Chem. 2000 Nov;48(11):5484-8
Authors: Pizzoferrato L, Manzi P, Bertocchi F, Fanelli C, Rotilio G, Paci M
The solid-state (13)C CP MAS NMR technique has the potential of monitoring the chemical composition in the solid state of an intact food sample. This property has been utilized...
nmrlearner
Journal club
0
11-19-2010 08:29 PM
[NMR paper] The CD4 determinant for downregulation by HIV-1 Nef directly binds to Nef. Mapping of
The CD4 determinant for downregulation by HIV-1 Nef directly binds to Nef. Mapping of the Nef binding surface by NMR.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--pubs.acs.org-images-acspubs.jpg Related Articles The CD4 determinant for downregulation by HIV-1 Nef directly binds to Nef. Mapping of the Nef binding surface by NMR.
Biochemistry. 1996 Aug 13;35(32):10256-61
Authors: Grzesiek S, Stahl SJ, Wingfield PT, Bax A
Using heteronuclear NMR spectroscopy, we demonstrate that a 13-residue peptide (MS-QIKRLLSEKKT) from the...
nmrlearner
Journal club
0
08-22-2010 02:20 PM
[NMR paper] 1H NMR sequential assignments and identification of secondary structural elements in
1H NMR sequential assignments and identification of secondary structural elements in oxidized putidaredoxin, an electron-transfer protein from Pseudomonas.
Related Articles 1H NMR sequential assignments and identification of secondary structural elements in oxidized putidaredoxin, an electron-transfer protein from Pseudomonas.
Biochemistry. 1992 Feb 25;31(7):1961-8
Authors: Ye XM, Pochapsky TC, Pochapsky SS
Sequential 1H resonance assignments and secondary structural features of putidaredoxin (Pdx), a 106-residue globular protein consisting of...