Literature DB >> 15039557

Determination of a novel structure by a combination of long-wavelength sulfur phasing and radiation-damage-induced phasing.

Manfred S Weiss1, Gerd Mander, Reiner Hedderich, Kay Diederichs, Ulrich Ermler, Eberhard Warkentin.   

Abstract

The structure of the 115 amino-acid residue protein DsvC was determined based on the anomalous scattering provided by the five S atoms present in the structure. By collecting the diffraction data at a wavelength of 1.9 A, the anomalous signal provided by the S atoms was enhanced. However, significant radiation damage occurred during the course of the experiment, which led to differences between different parts of the data set. Only by dividing the total data set into five data sets was it possible to obtain phases; these could then be successfully extended to allow structure determination by the automated model-building program ARP/wARP. A computational correction for the radiation damage was found to significantly improve the success rate in determining the heavy-atom substructure and to improve phasing and refinement statistics.

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Year:  2004        PMID: 15039557     DOI: 10.1107/S0907444904003002

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


  9 in total

1.  Use of europium ions for SAD phasing of lysozyme at the Cu Kα wavelength.

Authors:  Balakrishnan Vijayakumar; Devadasan Velmurugan
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2012-12-25

2.  S-SAD phasing study of death receptor 6 and its solution conformation revealed by SAXS.

Authors:  Heng Ru; Lixia Zhao; Wei Ding; Lianying Jiao; Neil Shaw; Wenguang Liang; Liguo Zhang; Li-Wei Hung; Naohiro Matsugaki; Soichi Wakatsuki; Zhi-Jie Liu
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2012-04-17

3.  Radiation damage in macromolecular crystallography: what is it and why should we care?

Authors:  Elspeth F Garman
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24

4.  Structure of the Archaeoglobus fulgidus orphan ORF AF1382 determined by sulfur SAD from a moderately diffracting crystal.

Authors:  Jin-Yi Zhu; Zheng-Qing Fu; Lirong Chen; Hao Xu; John Chrzas; John Rose; Bi-Cheng Wang
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2012-08-18

5.  Structural insights into dissimilatory sulfite reductases: structure of desulforubidin from desulfomicrobium norvegicum.

Authors:  Tânia F Oliveira; Edward Franklin; José P Afonso; Amir R Khan; Neil J Oldham; Inês A C Pereira; Margarida Archer
Journal:  Front Microbiol       Date:  2011-04-13       Impact factor: 5.640

6.  Additional phase information from UV damage of selenomethionine labelled proteins.

Authors:  Daniele de Sanctis; Paul A Tucker; Santosh Panjikar
Journal:  J Synchrotron Radiat       Date:  2011-03-11       Impact factor: 2.616

7.  Data collection with a tailored X-ray beam size at 2.69 Å wavelength (4.6 keV): sulfur SAD phasing of Cdc23(Nterm).

Authors:  Michele Cianci; Matthew R Groves; David Barford; Thomas R Schneider
Journal:  Acta Crystallogr D Struct Biol       Date:  2016-03-01       Impact factor: 7.652

8.  Radiation-damage-induced phasing: a case study using UV irradiation with light-emitting diodes.

Authors:  Daniele de Sanctis; Chloe Zubieta; Franck Felisaz; Hugo Caserotto; Max H Nanao
Journal:  Acta Crystallogr D Struct Biol       Date:  2016-03-01       Impact factor: 7.652

9.  X-ray and UV radiation-damage-induced phasing using synchrotron serial crystallography.

Authors:  Nicolas Foos; Carolin Seuring; Robin Schubert; Anja Burkhardt; Olof Svensson; Alke Meents; Henry N Chapman; Max H Nanao
Journal:  Acta Crystallogr D Struct Biol       Date:  2018-04-06       Impact factor: 7.652

  9 in total

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