Related ArticlesComplementarity and congruence between exact NOEs and traditional NMR probes for spatial decoding of protein dynamics.
J Struct Biol. 2015 Jul 20;
Authors: Vögeli B, Olsson S, Riek R, Güntert P
Abstract
The study of the spatial sampling of biomolecules is essential to understanding the structure-dynamics-function relationship. We have established a protocol for the determination of multiple-state ensembles based on exact measurements of the nuclear Overhauser effect (eNOE). The protocol is practical since it does not require any additional data, while all other NMR data sets must be supplemented by NOE restraints. The question arises as to how much structural and dynamics information is shared between the eNOEs and other NMR probes. We compile one of the largest and most diverse NMR data sets of a protein to date consisting of eNOEs, RDCs and J couplings for GB3. We show that the eNOEs improve the back-prediction of RDCs and J couplings, either upon use of more than one state, or in comparison to conventional NOEs. Our findings indicate that the eNOE data is self-consistent, consistent with other data, and that the structural representation with multiple states is warranted.
PMID: 26206511 [PubMed - as supplied by publisher]
Complementarity and congruence between exact NOEs and traditional NMR probes for spatial decoding of protein dynamics
Complementarity and congruence between exact NOEs and traditional NMR probes for spatial decoding of protein dynamics
Publication date: Available online 20 July 2015
Source:Journal of Structural Biology</br>
Author(s): Beat Vögeli, Simon Olsson, Roland Riek, Peter Güntert</br>
The study of the spatial sampling of biomolecules is essential to understanding the structure-dynamics-function relationship. We have established a protocol for the determination of multiple-state ensembles based on exact measurements of the nuclear Overhauser effect (eNOE). The...
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07-20-2015 09:54 PM
Decoding 'sweet codes' that determine protein fates - Phys.Org
Decoding 'sweet codes' that determine protein fates - Phys.Org
<img alt="" height="1" width="1" />
Decoding 'sweet codes' that determine protein fates
Phys.Org
Many experimentalists and theorists have taken on the challenge to solve this problem. NMR spectroscopy is one of the most promising experimental approaches for conformational analyses of the sugar chains because of its ability to determine geometrical ...
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09-15-2014 07:13 PM
Decoding 'sweet codes' that determine protein fates - EurekAlert (press release)
Decoding 'sweet codes' that determine protein fates - EurekAlert (press release)
<img alt="" height="1" width="1" />
Decoding 'sweet codes' that determine protein fates
EurekAlert (press release)
Many experimentalists and theorists have taken on the challenge to solve this problem. NMR spectroscopy is one of the most promising experimental approaches for conformational analyses of the sugar chains because of its ability to determine geometrical ...
Read here
nmrlearner
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09-13-2014 11:35 AM
[NMR paper] Towards a true protein movie: A perspective on the potential impact of the ensemble-based structure determination using exact NOEs
Towards a true protein movie: A perspective on the potential impact of the ensemble-based structure determination using exact NOEs
Publication date: April 2014
Source:Journal of Magnetic Resonance, Volume 241</br>
Author(s): Beat Vögeli , Julien Orts , Dean Strotz , Celestine Chi , Martina Minges , Marielle Aulikki Wälti , Peter Güntert , Roland Riek</br>
Confined by the Boltzmann distribution of the energies of the states, a multitude of structural states are inherent to biomolecules. For a detailed understanding of a protein’s function, its entire...
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03-22-2014 01:28 AM
[NMR images] Traditional NMR uses coils to
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http://michaelgr.com/2007/05/24/look-at-them-proteins-a-better-nuclear-magnetic-resonance-probe-and-a-look-at-computational-protein-research/
20/12/2011 4:11:48 PM GMT
Traditional NMR uses coils to
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01-12-2012 09:30 PM
Methyl groups as probes of supra-molecular structure, dynamics and function
Methyl groups as probes of supra-molecular structure, dynamics and function
Abstract The development of new protein labeling strategies, along with optimized experiments that exploit the label, have significantly impacted on the types of biochemical problems that can now be addressed by solution NMR spectroscopy. Here we describe how methyl labeling of key residues in a highly deuterated protein background has facilitated studies of the structure, dynamics and interactions of supra-molecular particles. The methyl-labeling approach is briefly reviewed, followed by a summary of...
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01-09-2011 12:46 PM
[NMR paper] Nmr probes of molecular dynamics: overview and comparison with other techniques.
Nmr probes of molecular dynamics: overview and comparison with other techniques.
Related Articles Nmr probes of molecular dynamics: overview and comparison with other techniques.
Annu Rev Biophys Biomol Struct. 2001;30:129-55
Authors: Palmer AG
NMR spin relaxation spectroscopy is a powerful approach for characterizing intramolecular and overall rotational motions in proteins. This review describes experimental methods for measuring laboratory frame spin relaxation rate constants by high-resolution solution-state NMR spectroscopy, together...
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11-19-2010 08:32 PM
[NMR paper] Completeness of NOEs in protein structure: a statistical analysis of NMR.
Completeness of NOEs in protein structure: a statistical analysis of NMR.
Related Articles Completeness of NOEs in protein structure: a statistical analysis of NMR.
J Biomol NMR. 1999 Jun;14(2):123-32
Authors: Doreleijers JF, Raves ML, Rullmann T, Kaptein R
The completeness of experimentally observed NOE restraints of a set of 97 NMR protein structures deposited in the PDB has been assessed. Completeness is defined as the ratio of the number of experimentally observed NOEs and the number of 'expected NOEs'. A practical definition of 'expected...