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Ill-conditioned Shake-and-Bake: the trap of the false minimum

Ill-conditioned Shake-and-Bake: the trap of the false minimum The alternation of phase refinement with the imposition of real-space constraints is the essence of the Shake-and-Bake procedure. Typically, these constraints prevent trial structures from falling into local minima. Nevertheless, structures appear to migrate to false minima with significant frequency. These false minima are characterized by the presence of a large `uranium' peak on the corresponding Fourier map. Fortunately, they can be recognized and avoided by considering the values of the minimal function both before and after the application of constraints. However, it appears that finding solutions for large structures is likely also to require parameter-shift conditions different from those that have been found to work well in other space groups. In fact, these conditions often yield an unusually high percentage of solutions. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Acta Crystallographica Section A: Foundations of Crystallography International Union of Crystallography

Ill-conditioned Shake-and-Bake: the trap of the false minimum

Ill-conditioned Shake-and-Bake: the trap of the false minimum


Abstract

The alternation of phase refinement with the imposition of real-space constraints is the essence of the Shake-and-Bake procedure. Typically, these constraints prevent trial structures from falling into local minima. Nevertheless, structures appear to migrate to false minima with significant frequency. These false minima are characterized by the presence of a large `uranium' peak on the corresponding Fourier map. Fortunately, they can be recognized and avoided by considering the values of the minimal function both before and after the application of constraints. However, it appears that finding solutions for large structures is likely also to require parameter-shift conditions different from those that have been found to work well in other space groups. In fact, these conditions often yield an unusually high percentage of solutions.

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References (9)

Publisher
International Union of Crystallography
Copyright
Copyright (c) 2000 International Union of Crystallography
Subject
Shake-and-Bake, phase problem
ISSN
0108-7673
eISSN
1600-5724
DOI
10.1107/S0108767399014786
Publisher site
See Article on Publisher Site

Abstract

The alternation of phase refinement with the imposition of real-space constraints is the essence of the Shake-and-Bake procedure. Typically, these constraints prevent trial structures from falling into local minima. Nevertheless, structures appear to migrate to false minima with significant frequency. These false minima are characterized by the presence of a large `uranium' peak on the corresponding Fourier map. Fortunately, they can be recognized and avoided by considering the values of the minimal function both before and after the application of constraints. However, it appears that finding solutions for large structures is likely also to require parameter-shift conditions different from those that have been found to work well in other space groups. In fact, these conditions often yield an unusually high percentage of solutions.

Journal

Acta Crystallographica Section A: Foundations of CrystallographyInternational Union of Crystallography

Published: Mar 1, 2000

Keywords: Shake-and-Bake; phase problem.

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