Literature DB >> 15299558

Application of the minimal principle to peptide structures.

C M Weeks1, G T DeTitta, R Miller, H A Hauptman.   

Abstract

A new direct-methods procedure has been devised which consists of phase refinement via the minimal function, R(phi), alternated with Fourier summation and real space filtering. All phases are initially assigned values by computing structure factors for a randomly positioned set of atoms. These phases are then refined by using a parameter shift method to minimize R(phi). The refined phases are Fourier transformed, and a specified number of the largest peaks in the electron-density function are found and used as a new trial structure. The probability of a trial structure converging to a solution appears to depend on structural complexity and a number of refinement parameters. This procedure shows potential for providing fully automatic routine solutions for structures in the 200-400 atom range.

Year:  1993        PMID: 15299558     DOI: 10.1107/S090744499200876X

Source DB:  PubMed          Journal:  Acta Crystallogr D Biol Crystallogr        ISSN: 0907-4449


  9 in total

1.  Forced coalescence phasing: a method for ab initio determination of crystallographic phases.

Authors:  W B Drendel; R D Davé; S Jain
Journal:  Proc Natl Acad Sci U S A       Date:  1995-01-17       Impact factor: 11.205

2.  Methanoarchaeal sulfolactate dehydrogenase: prototype of a new family of NADH-dependent enzymes.

Authors:  Adriana Irimia; Dominique Madern; Giuseppe Zaccaï; Frédéric M D Vellieux
Journal:  EMBO J       Date:  2004-03-11       Impact factor: 11.598

3.  The Shake-and-Bake structure determination of triclinic lysozyme.

Authors:  A M Deacon; C M Weeks; R Miller; S E Ealick
Journal:  Proc Natl Acad Sci U S A       Date:  1998-08-04       Impact factor: 11.205

4.  Macromolecular X-ray structure determination using weak, single-wavelength anomalous data.

Authors:  Gábor Bunkóczi; Airlie J McCoy; Nathaniel Echols; Ralf W Grosse-Kunstleve; Paul D Adams; James M Holton; Randy J Read; Thomas C Terwilliger
Journal:  Nat Methods       Date:  2014-12-22       Impact factor: 28.547

5.  Ab initio solution of macromolecular crystal structures without direct methods.

Authors:  Airlie J McCoy; Robert D Oeffner; Antoni G Wrobel; Juha R M Ojala; Karl Tryggvason; Bernhard Lohkamp; Randy J Read
Journal:  Proc Natl Acad Sci U S A       Date:  2017-03-21       Impact factor: 11.205

6.  Can I solve my structure by SAD phasing? Planning an experiment, scaling data and evaluating the useful anomalous correlation and anomalous signal.

Authors:  Thomas C Terwilliger; Gábor Bunkóczi; Li Wei Hung; Peter H Zwart; Janet L Smith; David L Akey; Paul D Adams
Journal:  Acta Crystallogr D Struct Biol       Date:  2016-03-01       Impact factor: 7.652

7.  Can I solve my structure by SAD phasing? Anomalous signal in SAD phasing.

Authors:  Thomas C Terwilliger; Gábor Bunkóczi; Li Wei Hung; Peter H Zwart; Janet L Smith; David L Akey; Paul D Adams
Journal:  Acta Crystallogr D Struct Biol       Date:  2016-03-01       Impact factor: 7.652

8.  Substructure determination using phase-retrieval techniques.

Authors:  Pavol Skubák
Journal:  Acta Crystallogr D Struct Biol       Date:  2018-02-01       Impact factor: 7.652

9.  A new density-modification procedure extending the application of the recent |ρ|-based phasing algorithm to larger crystal structures.

Authors:  Jordi Rius; Xavier Torrelles
Journal:  Acta Crystallogr A Found Adv       Date:  2021-06-21       Impact factor: 2.290

  9 in total

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