Literature DB >> 11318629

A maximum likelihood method for determining D(a)(PQ) and R for sets of dipolar coupling data.

J J Warren1, P B Moore.   

Abstract

The algorithms available today that use dipolar coupling data for macromolecular structure determination require the independent determination of two parameters, D(a)(PQ) and R. Methods exist for obtaining these parameters when the set of dipolar couplings available is large and the orientations of the interatomic vectors on which they report is isotropically distributed. These methods are less satisfactory when the set is small and anisotropic. Described here is a maximum likelihood method that extracts accurate values for D(a)(PQ) and R from small, anisotropic data sets. Also demonstrated is a procedure for estimating the errors associated with the values of D(a)(PQ) and R obtained and for incorporating these errors into refinement protocols. Copyright 2001 Academic Press.

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Year:  2001        PMID: 11318629     DOI: 10.1006/jmre.2001.2307

Source DB:  PubMed          Journal:  J Magn Reson        ISSN: 1090-7807            Impact factor:   2.229


  24 in total

1.  An easy way to include weak alignment constraints into NMR structure calculations.

Authors:  H J Sass; G Musco; S J Stahl; P T Wingfield; S Grzesiek
Journal:  J Biomol NMR       Date:  2001-11       Impact factor: 2.835

2.  Application of dipolar coupling data to the refinement of the solution structure of the sarcin-ricin loop RNA.

Authors:  J J Warren; P B Moore
Journal:  J Biomol NMR       Date:  2001-08       Impact factor: 2.835

3.  Structural basis for a lethal mutation in U6 RNA.

Authors:  Dipali G Sashital; Anne M Allmann; Steven R Van Doren; Samuel E Butcher
Journal:  Biochemistry       Date:  2003-02-18       Impact factor: 3.162

4.  Determination of molecular alignment tensors without backbone resonance assignment: Aid to rapid analysis of protein-protein interactions.

Authors:  Markus Zweckstetter
Journal:  J Biomol NMR       Date:  2003-09       Impact factor: 2.835

5.  Backbone assignment of proteins with known structure using residual dipolar couplings.

Authors:  Young-Sang Jung; Markus Zweckstetter
Journal:  J Biomol NMR       Date:  2004-09       Impact factor: 2.835

6.  Determination of protein backbone structures from residual dipolar couplings.

Authors:  J H Prestegard; K L Mayer; H Valafar; G C Benison
Journal:  Methods Enzymol       Date:  2005       Impact factor: 1.600

7.  Structure of a self-splicing group II intron catalytic effector domain 5: parallels with spliceosomal U6 RNA.

Authors:  Mahadevan Seetharaman; Nadukkudy V Eldho; Richard A Padgett; Kwaku T Dayie
Journal:  RNA       Date:  2006-02       Impact factor: 4.942

8.  Paramagnetic-based NMR restraints lift residual dipolar coupling degeneracy in multidomain detergent-solubilized membrane proteins.

Authors:  Lei Shi; Nathaniel J Traaseth; Raffaello Verardi; Martin Gustavsson; Jiali Gao; Gianluigi Veglia
Journal:  J Am Chem Soc       Date:  2011-02-02       Impact factor: 15.419

9.  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

10.  Estimation of relative order tensors, and reconstruction of vectors in space using unassigned RDC data and its application.

Authors:  Xijiang Miao; Rishi Mukhopadhyay; Homayoun Valafar
Journal:  J Magn Reson       Date:  2008-07-12       Impact factor: 2.229

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