Literature DB >> 8358235

SESAME: a least-squares approach to the evaluation of protein structures computed from NMR data.

J X Yang1, T F Havel.   

Abstract

A method is proposed for defining a probability distribution on an ensemble of protein conformations from a 2D NOE spectrum, while at the same time back-calculating the experimental spectrum from the ensemble. This enables one to assess the relative quality and significance of the conformations, and to test the consistency of the ensemble as a whole with the experimental spectrum. The method eliminates the need to integrate the cross-peak intensities and is surprisingly insensitive to random noise in the spectrum. In this communication, these advantages are demonstrated by applying the method to simulated data, for which the correct result is already known.

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Year:  1993        PMID: 8358235     DOI: 10.1007/bf00212521

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


  7 in total

1.  Determination of a high-quality nuclear magnetic resonance solution structure of the bovine pancreatic trypsin inhibitor and comparison with three crystal structures.

Authors:  K D Berndt; P Güntert; L P Orbons; K Wüthrich
Journal:  J Mol Biol       Date:  1992-10-05       Impact factor: 5.469

2.  Simulation of NOESY spectra of DNA segments: a new scaling procedure for iterative comparison of calculated and experimental NOE intensities.

Authors:  R Nibedita; R A Kumar; A Majumdar; R V Hosur
Journal:  J Biomol NMR       Date:  1992-09       Impact factor: 2.835

Review 3.  NMR structure determination in solution: a critique and comparison with X-ray crystallography.

Authors:  G Wagner; S G Hyberts; T F Havel
Journal:  Annu Rev Biophys Biomol Struct       Date:  1992

Review 4.  An evaluation of computational strategies for use in the determination of protein structure from distance constraints obtained by nuclear magnetic resonance.

Authors:  T F Havel
Journal:  Prog Biophys Mol Biol       Date:  1991       Impact factor: 3.667

5.  Motional effects on NMR structural data. Comparison of spinach and Escherichia coli acyl carrier proteins.

Authors:  Y Kim; J B Ohlrogge; J H Prestegard
Journal:  Biochem Pharmacol       Date:  1990-07-01       Impact factor: 5.858

6.  Multi-conformational peptide dynamics derived from NMR data: a new search algorithm and its application to antamanide.

Authors:  R Brüschweiler; M Blackledge; R R Ernst
Journal:  J Biomol NMR       Date:  1991-05       Impact factor: 2.835

7.  The solution structure of eglin c based on measurements of many NOEs and coupling constants and its comparison with X-ray structures.

Authors:  S G Hyberts; M S Goldberg; T F Havel; G Wagner
Journal:  Protein Sci       Date:  1992-06       Impact factor: 6.725

  7 in total
  3 in total

1.  FINGAR: A new genetic algorithm-based method for fitting NMR data.

Authors:  D A Pearlman
Journal:  J Biomol NMR       Date:  1996-07       Impact factor: 2.835

2.  Maximum entropy approach to the determination of solution conformation of flexible polypeptides by global conformational analysis and NMR spectroscopy--application to DNS1-c-[D-A2,bu2,Trp4,Leu5]enkephalin and DNS1-c-[D-A2bu2,Trp4,D-Leu5]enkephalin.

Authors:  M Groth; J Malicka; C Czaplewski; S Ołdziej; L Lankiewicz; W Wiczk; A Liwo
Journal:  J Biomol NMR       Date:  1999-12       Impact factor: 2.835

3.  Matrix decompositions of two-dimensional nuclear magnetic resonance spectra.

Authors:  T F Havel; I Najfeld; J X Yang
Journal:  Proc Natl Acad Sci U S A       Date:  1994-08-16       Impact factor: 11.205

  3 in total

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