Literature DB >> 12061715

Practical aspects of the 2D 15N-[1h]-NOE experiment.

Christian Renner1, Michael Schleicher, Luis Moroder, Tad A Holak.   

Abstract

The heteronuclear 15N-NOE experiment was extensively tested with respect to statistical and systematic experimental error. The dependence of signal intensity in the NOE experiment and in the reference experiment on the saturation and relaxation time was experimentally investigated. The statistics of the experimental values were accessed by numerous repetitions of identical set-ups. As a model system a protein of typical size for NMR studies was chosen, i.e., a 120 amino acid residues containing fragment of the F-actin binding gelation factor (ABP-120). The fragment exhibits fast dynamics that are accessible with the 15N-NOE experiment with various amplitudes. The results of this study show that commonly used parameters are only adequate for accurate measurement of motions with moderate amplitude. Highly flexible parts require longer delay times and thus more experimental time than commonly used. On the other hand, a qualitative or semi-quantitative assessment of a protein's mobility on fast times scales can be obtained from rapidly recorded experiments with unusual short delay times. The findings of this study are of equal importance for highly accurate measurement of the 15N-NOE as well as for quick identification of mobile or even unstructured residues/parts of a protein.

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Year:  2002        PMID: 12061715     DOI: 10.1023/a:1015385910220

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


  21 in total

1.  Backbone dynamics of the major coat protein of bacteriophage M13 in detergent micelles by 15N nuclear magnetic resonance relaxation measurements using the model-free approach and reduced spectral density mapping.

Authors:  C H Papavoine; M L Remerowski; L M Horstink; R N Konings; C W Hilbers; F J van de Ven
Journal:  Biochemistry       Date:  1997-04-01       Impact factor: 3.162

2.  Internal mobility in the partially folded DNA binding and dimerization domains of GAL4: NMR analysis of the N-H spectral density functions.

Authors:  J F Lefevre; K T Dayie; J W Peng; G Wagner
Journal:  Biochemistry       Date:  1996-02-27       Impact factor: 3.162

3.  The repeating segments of the F-actin cross-linking gelation factor (ABP-120) have an immunoglobulin-like fold.

Authors:  P Fucini; C Renner; C Herberhold; A A Noegel; T A Holak
Journal:  Nat Struct Biol       Date:  1997-03

4.  NMR 15N relaxation of the insulin-like growth factor (IGF)-binding domain of IGF binding protein-5 (IGFBP-5) determined free in solution and in complex with IGF-II.

Authors:  C Renner; T Holak
Journal:  Eur J Biochem       Date:  2001-02

5.  Main-chain dynamics of a partially folded protein: 15N NMR relaxation measurements of hen egg white lysozyme denatured in trifluoroethanol.

Authors:  M Buck; H Schwalbe; C M Dobson
Journal:  J Mol Biol       Date:  1996-04-05       Impact factor: 5.469

6.  Structure of interleukin 16 resembles a PDZ domain with an occluded peptide binding site.

Authors:  P Mühlhahn; M Zweckstetter; J Georgescu; C Ciosto; C Renner; M Lanzendörfer; K Lang; D Ambrosius; M Baier; R Kurth; T A Holak
Journal:  Nat Struct Biol       Date:  1998-08

7.  Overcoming solvent saturation-transfer artifacts in protein NMR at neutral pH. Application of pulsed field gradients in measurements of 1H-15N Overhauser effects.

Authors:  Y C Li; G T Montelione
Journal:  J Magn Reson B       Date:  1994-09

8.  Backbone dynamics of proteins as studied by 15N inverse detected heteronuclear NMR spectroscopy: application to staphylococcal nuclease.

Authors:  L E Kay; D A Torchia; A Bax
Journal:  Biochemistry       Date:  1989-11-14       Impact factor: 3.162

9.  Backbone dynamics of the CDK inhibitor p19(INK4d) studied by 15N NMR relaxation experiments at two field strengths.

Authors:  C Renner; R Baumgartner; A A Noegel; T A Holak
Journal:  J Mol Biol       Date:  1998       Impact factor: 5.469

10.  Backbone dynamics of a free and phosphopeptide-complexed Src homology 2 domain studied by 15N NMR relaxation.

Authors:  N A Farrow; R Muhandiram; A U Singer; S M Pascal; C M Kay; G Gish; S E Shoelson; T Pawson; J D Forman-Kay; L E Kay
Journal:  Biochemistry       Date:  1994-05-17       Impact factor: 3.162

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  41 in total

1.  Structural analysis of the conserved ubiquitin-binding motifs (UBMs) of the translesion polymerase iota in complex with ubiquitin.

Authors:  Daniel Burschowsky; Fabian Rudolf; Gwénaël Rabut; Torsten Herrmann; Matthias Peter; Peter Matthias; Gerhard Wider
Journal:  J Biol Chem       Date:  2010-10-06       Impact factor: 5.157

2.  Solution structure of an avirulence protein, AVR-Pia, from Magnaporthe oryzae.

Authors:  Toyoyuki Ose; Azusa Oikawa; Yukiko Nakamura; Katsumi Maenaka; Yuya Higuchi; Yuki Satoh; Shiho Fujiwara; Makoto Demura; Teruo Sone; Masakatsu Kamiya
Journal:  J Biomol NMR       Date:  2015-09-11       Impact factor: 2.835

3.  Novel beta-barrel fold in the nuclear magnetic resonance structure of the replicase nonstructural protein 1 from the severe acute respiratory syndrome coronavirus.

Authors:  Marcius S Almeida; Margaret A Johnson; Torsten Herrmann; Michael Geralt; Kurt Wüthrich
Journal:  J Virol       Date:  2007-01-03       Impact factor: 5.103

4.  15N-{1H} NOE experiment at high magnetic field strengths.

Authors:  Qingguo Gong; Rieko Ishima
Journal:  J Biomol NMR       Date:  2007-01-16       Impact factor: 2.835

5.  Backbone dynamics in an intramolecular prolylpeptide-SH3 complex from the diphtheria toxin repressor, DtxR.

Authors:  Nilakshee Bhattacharya; Myunggi Yi; Huan-Xiang Zhou; Timothy M Logan
Journal:  J Mol Biol       Date:  2007-10-31       Impact factor: 5.469

6.  Model-free analysis for large proteins at high magnetic field strengths.

Authors:  Shou-Lin Chang; Andrew P Hinck; Rieko Ishima
Journal:  J Biomol NMR       Date:  2007-06-26       Impact factor: 2.835

7.  Comparison of multiple crystal structures with NMR data for engrailed homeodomain.

Authors:  Tomasz L Religa
Journal:  J Biomol NMR       Date:  2008-02-15       Impact factor: 2.835

8.  Nuclear magnetic resonance structure of the N-terminal domain of nonstructural protein 3 from the severe acute respiratory syndrome coronavirus.

Authors:  Pedro Serrano; Margaret A Johnson; Marcius S Almeida; Reto Horst; Torsten Herrmann; Jeremiah S Joseph; Benjamin W Neuman; Vanitha Subramanian; Kumar S Saikatendu; Michael J Buchmeier; Raymond C Stevens; Peter Kuhn; Kurt Wüthrich
Journal:  J Virol       Date:  2007-08-29       Impact factor: 5.103

9.  Dynamically driven ligand selectivity in cyclic nucleotide binding domains.

Authors:  Rahul Das; Somenath Chowdhury; Mohammad T Mazhab-Jafari; Soumita Sildas; Rajeevan Selvaratnam; Giuseppe Melacini
Journal:  J Biol Chem       Date:  2009-04-29       Impact factor: 5.157

10.  Point mutations in the N-terminal domain of transactive response DNA-binding protein 43 kDa (TDP-43) compromise its stability, dimerization, and functions.

Authors:  Miguel Mompeán; Valentina Romano; David Pantoja-Uceda; Cristiana Stuani; Francisco E Baralle; Emanuele Buratti; Douglas V Laurents
Journal:  J Biol Chem       Date:  2017-05-31       Impact factor: 5.157

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