Related ArticlesPeakr: Simulating solid-state NMR spectra of proteins.
Bioinformatics. 2013 Mar 14;
Authors: Schneider R, Odronitz F, Hammesfahr B, Hellkamp M, Kollmar M
Abstract
MOTIVATION: When analyzing solid-state NMR spectra of proteins, assignment of resonances to nuclei and derivation of restraints for 3D structure calculations are challenging and time-consuming processes. Simulated spectra that have been calculated based on, e.g., chemical shift predictions and structural models can be of considerable help. Existing solutions are typically limited in the type of experiment they can consider and difficult to adapt to different settings. RESULTS: Here, we present Peakr, a software to simulate solid-state NMR spectra of proteins. It can generate simulated spectra based on numerous common types of internuclear correlations relevant for assignment and structure elucidation, can compare simulated and experimental spectra, and produces lists and visualizations useful for analyzing measured spectra. Compared to other solutions it is fast, versatile and user friendly.Availability and Implementation: Peakr is maintained under the GPL license and can be accessed at http://www.peakr.org. The source code can be obtained upon request from the authors. CONTACT: robert.schneider@ibs.fr, mako@nmr.mpibpc.mpg.de.
PMID: 23493322 [PubMed - as supplied by publisher]
[NMR paper] Yeast-expressed human membrane protein aquaporin-1 yields excellent resolution of solid-state MAS NMR spectra.
Yeast-expressed human membrane protein aquaporin-1 yields excellent resolution of solid-state MAS NMR spectra.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--production.springer.de-OnlineResources-Logos-springerlink.gif Related Articles Yeast-expressed human membrane protein aquaporin-1 yields excellent resolution of solid-state MAS NMR spectra.
J Biomol NMR. 2013 Jan 24;
Authors: Emami S, Fan Y, Munro R, Ladizhansky V, Brown LS
Abstract
One of the biggest challenges in solid-state NMR studies of membrane proteins is to obtain a...
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02-03-2013 10:19 AM
Solid state NMR of proteins at high MAS frequencies: symmetry-based mixing and simultaneous acquisition of chemical shift correlation spectra
Solid state NMR of proteins at high MAS frequencies: symmetry-based mixing and simultaneous acquisition of chemical shift correlation spectra
Abstract We have carried out chemical shift correlation experiments with symmetry-based mixing sequences at high MAS frequencies and examined different strategies to simultaneously acquire 3D correlation spectra that are commonly required in the structural studies of proteins. The potential of numerically optimised symmetry-based mixing sequences and the simultaneous recording of chemical shift correlation spectra such as: 3D NCAC and 3D NHH...
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11-29-2012 03:14 AM
Protein NMR - A Practical Guide - Solid-state MAS NMR Spectra
Below is a Google-cached version of Protein NMR - A Practical Guide - Solid-state MAS NMR Spectra
page from www.protein-nmr.org.uk crashed on 11/6/11. You may want to check first if the site has been restored since it would also display images or/and have a more updated info.
Spectrum Descriptions
This page contains a list of some solid-state magic-angle spinning (MAS) NMR experiments which are useful for protein solid-state MAS NMR assignment and structure calculations. For each experiment there is short description and an illustration showing the observed magnetisation...
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11-07-2011 04:17 AM
AssignFit: a program for simultaneous assignment and structure refinement from solid-state NMR spectra
AssignFit: a program for simultaneous assignment and structure refinement from solid-state NMR spectra
Publication year: 2011
Source: Journal of Magnetic Resonance, Available online 8 October 2011</br>
Ye*Tian, Charles D.*Schwieters, Stanley J.*Opella, Francesca M.*Marassi</br>
AssignFit is a computer program developed within the XPLOR-NIH package for the assignment of dipolar coupling (DC) and chemical shift anisotropy (CSA) restraints derived from the solid-state NMR spectra of protein samples with uniaxial order. The method is based on minimizing the difference between...
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10-10-2011 06:27 AM
GFT projection NMR spectroscopy for proteins in the solid state.
GFT projection NMR spectroscopy for proteins in the solid state.
GFT projection NMR spectroscopy for proteins in the solid state.
J Biomol NMR. 2010 Oct 30;
Authors: Trent Franks W, Atreya HS, Szyperski T, Rienstra CM
Recording of four-dimensional (4D) spectra for proteins in the solid state has opened new avenues to obtain virtually complete resonance assignments and three-dimensional (3D) structures of proteins. As in solution state NMR, the sampling of three indirect dimensions leads per se to long minimal measurement time. Furthermore,...
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11-06-2010 11:02 AM
[NMR paper] Prospects for resonance assignments in multidimensional solid-state NMR spectra of un
Prospects for resonance assignments in multidimensional solid-state NMR spectra of uniformly labeled proteins.
Related Articles Prospects for resonance assignments in multidimensional solid-state NMR spectra of uniformly labeled proteins.
J Biomol NMR. 1996 Oct;8(3):239-51
Authors: Tycko R
The feasibility of assigning the backbone 15N and 13C NMR chemical shifts in multidimensional magic angle spinning NMR spectra of uniformly isotopically labeled proteins and peptides in unoriented solid samples is assessed by means of numerical simulations....
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08-22-2010 02:20 PM
Solid State NMR of membrane peptides and proteins
Solid State NMR of membrane peptides and proteins
Lecture notes on "Solid State NMR of membrane peptides and proteins" by Dr. SK Straus from Univ. of British Columbia
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08-16-2010 03:50 AM
High Resolution 1H Detected 1H,13C Correlation Spectra in MAS Solid-State NMR using Deuterated Proteins with Selective 1H,2H Isotopic Labeling of Methyl Groups
High Resolution <SUP>1</SUP>H Detected <SUP>1</SUP>H,<SUP>13</SUP>C Correlation Spectra in MAS Solid-State NMR using Deuterated Proteins with Selective <SUP>1</SUP>H,<SUP>2</SUP>H Isotopic Labeling of Methyl Groups
Vipin Agarwal, Anne Diehl, Nikolai Skrynnikov, and Bernd Reif
J. Am. Chem. Soc.; 2006; 128(39) pp 12620 - 12621;
Abstract:
MAS solid-state NMR experiments applied to biological solids are still hampered by low sensitivity and resolution. In this work, we employ a deuteration scheme in which individual methyl groups are selectively protonated. This labeling scheme...
Peakr: Simulating solid-state NMR spectra of proteins.
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