Literature DB >> 16287280

Modeling errors in NOE data with a log-normal distribution improves the quality of NMR structures.

Wolfgang Rieping1, Michael Habeck, Michael Nilges.   

Abstract

The distribution of the deviation of calculated from measured nuclear Overhauser effect (NOE) intensities is a priori unknown. The use of a log-normal distribution to describe these deviations permits the direct calculation of a structure from the measured intensities without first converting them into distance bounds. We show that the log-normal distribution is a natural choice for describing errors in NOE data and that it improves the accuracy, precision, and quality of the calculated structures compared to the usual bounds representation.

Mesh:

Year:  2005        PMID: 16287280     DOI: 10.1021/ja055092c

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  14 in total

1.  Weighting of experimental evidence in macromolecular structure determination.

Authors:  Michael Habeck; Wolfgang Rieping; Michael Nilges
Journal:  Proc Natl Acad Sci U S A       Date:  2006-01-30       Impact factor: 11.205

2.  A unifying probabilistic framework for analyzing residual dipolar couplings.

Authors:  Michael Habeck; Michael Nilges; Wolfgang Rieping
Journal:  J Biomol NMR       Date:  2007-12-20       Impact factor: 2.835

3.  NMR structural inference of symmetric homo-oligomers.

Authors:  Himanshu Chandola; Anthony K Yan; Shobha Potluri; Bruce R Donald; Chris Bailey-Kellogg
Journal:  J Comput Biol       Date:  2011-06-30       Impact factor: 1.479

4.  Distance-based protein folding powered by deep learning.

Authors:  Jinbo Xu
Journal:  Proc Natl Acad Sci U S A       Date:  2019-08-09       Impact factor: 11.205

5.  Xplor-NIH for molecular structure determination from NMR and other data sources.

Authors:  Charles D Schwieters; Guillermo A Bermejo; G Marius Clore
Journal:  Protein Sci       Date:  2017-09-18       Impact factor: 6.725

6.  Genetic interaction mapping informs integrative structure determination of protein complexes.

Authors:  Hannes Braberg; Ignacia Echeverria; Stefan Bohn; Peter Cimermancic; Anthony Shiver; Richard Alexander; Jiewei Xu; Michael Shales; Raghuvar Dronamraju; Shuangying Jiang; Gajendradhar Dwivedi; Derek Bogdanoff; Kaitlin K Chaung; Ruth Hüttenhain; Shuyi Wang; David Mavor; Riccardo Pellarin; Dina Schneidman; Joel S Bader; James S Fraser; John Morris; James E Haber; Brian D Strahl; Carol A Gross; Junbiao Dai; Jef D Boeke; Andrej Sali; Nevan J Krogan
Journal:  Science       Date:  2020-12-11       Impact factor: 47.728

7.  Blind testing of routine, fully automated determination of protein structures from NMR data.

Authors:  Antonio Rosato; James M Aramini; Cheryl Arrowsmith; Anurag Bagaria; David Baker; Andrea Cavalli; Jurgen F Doreleijers; Alexander Eletsky; Andrea Giachetti; Paul Guerry; Aleksandras Gutmanas; Peter Güntert; Yunfen He; Torsten Herrmann; Yuanpeng J Huang; Victor Jaravine; Hendrik R A Jonker; Michael A Kennedy; Oliver F Lange; Gaohua Liu; Thérèse E Malliavin; Rajeswari Mani; Binchen Mao; Gaetano T Montelione; Michael Nilges; Paolo Rossi; Gijs van der Schot; Harald Schwalbe; Thomas A Szyperski; Michele Vendruscolo; Robert Vernon; Wim F Vranken; Sjoerd de Vries; Geerten W Vuister; Bin Wu; Yunhuang Yang; Alexandre M J J Bonvin
Journal:  Structure       Date:  2012-02-08       Impact factor: 5.006

8.  Structure validation of the Josephin domain of ataxin-3: conclusive evidence for an open conformation.

Authors:  Giuseppe Nicastro; Michael Habeck; Laura Masino; Dmitri I Svergun; Annalisa Pastore
Journal:  J Biomol NMR       Date:  2006-11-10       Impact factor: 2.835

9.  Improved reliability, accuracy and quality in automated NMR structure calculation with ARIA.

Authors:  Fabien Mareuil; Thérèse E Malliavin; Michael Nilges; Benjamin Bardiaux
Journal:  J Biomol NMR       Date:  2015-04-11       Impact factor: 2.835

10.  NMR and X-ray analysis of structural additivity in metal binding site-swapped hybrids of rubredoxin.

Authors:  David M LeMaster; Janet S Anderson; Limin Wang; Yi Guo; Hongmin Li; Griselda Hernández
Journal:  BMC Struct Biol       Date:  2007-12-05
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