Literature DB >> 19904498

Side chain: backbone projections in aromatic and ASX residues from NMR cross-correlated relaxation.

Beat Vögeli1, Roland Riek.   

Abstract

The measurements of cross-correlated relaxation rates between H(N)-N and C(beta)-C(gamma) intraresidual and sequential dipolar interactions is demonstrated in ASN, ASP and aromatic residues. The experiment can be used for deuterated samples and no additional knowledge such as Karplus parametrizations is required for the analysis. The data constitutes a new type of information since no other method relates the C(beta)-C(gamma) bond to H(N)-N. Using this method the dominant populations of rotamer states of chi 1 can be readily cross checked provided that phi or psi are known. In addition, dynamics on all timescales can be probed. As opposed to standard dynamics analysis of isolated bonds, the presented observables depend on relative dynamics with an interesting prospect to analyze correlated fluctuations of the two torsion angles phi or psi with chi 1. Experimental rates are compared to single conformer and ensemble representations of GB3 and ubiquitin. In particular, it is found that the recently published ubiquitin ensemble 2k39 improves the agreement obtained for 1UBQ. In general, however, input data restricting ASX and aromatic side chains in structure calculation is sparse highlighting the need for new NMR observables.

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Year:  2009        PMID: 19904498     DOI: 10.1007/s10858-009-9387-y

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  46 in total

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3.  Measurement of eight scalar and dipolar couplings for methine-methylene pairs in proteins and nucleic acids.

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Journal:  J Biomol NMR       Date:  2005-03       Impact factor: 2.835

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Journal:  J Mol Biol       Date:  2006-02-03       Impact factor: 5.469

5.  Protein conformational flexibility from structure-free analysis of NMR dipolar couplings: quantitative and absolute determination of backbone motion in ubiquitin.

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6.  Self-consistent residual dipolar coupling based model-free analysis for the robust determination of nanosecond to microsecond protein dynamics.

Authors:  Nils-Alexander Lakomek; Korvin F A Walter; Christophe Farès; Oliver F Lange; Bert L de Groot; Helmut Grubmüller; Rafael Brüschweiler; Axel Munk; Stefan Becker; Jens Meiler; Christian Griesinger
Journal:  J Biomol NMR       Date:  2008-06-04       Impact factor: 2.835

7.  Direct measurement of angles between bond vectors in high-resolution NMR.

Authors:  B Reif; M Hennig; C Griesinger
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8.  A study of protein side-chain dynamics from new 2H auto-correlation and 13C cross-correlation NMR experiments: application to the N-terminal SH3 domain from drk.

Authors:  D Yang; A Mittermaier; Y K Mok; L E Kay
Journal:  J Mol Biol       Date:  1998-03-13       Impact factor: 5.469

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10.  Detection of nanosecond time scale side-chain jumps in a protein dissolved in water/glycerol solvent.

Authors:  Jun Xu; Yi Xue; Nikolai R Skrynnikov
Journal:  J Biomol NMR       Date:  2009-07-07       Impact factor: 2.835

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  3 in total

1.  How uniform is the peptide plane geometry? A high-accuracy NMR study of dipolar Cα-C'/H N-N cross-correlated relaxation.

Authors:  Beat Vögeli
Journal:  J Biomol NMR       Date:  2011-06-03       Impact factor: 2.835

2.  Cross-correlated relaxation rates between protein backbone H-X dipolar interactions.

Authors:  Beat Vögeli
Journal:  J Biomol NMR       Date:  2017-03-12       Impact factor: 2.835

Review 3.  Distance-independent Cross-correlated Relaxation and Isotropic Chemical Shift Modulation in Protein Dynamics Studies.

Authors:  Beat Vögeli; Liliya Vugmeyster
Journal:  Chemphyschem       Date:  2018-09-03       Impact factor: 3.520

  3 in total

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