Literature DB >> 15159568

Structural effects of radiation damage and its potential for phasing.

Sankaran Banumathi1, Petrus H Zwart, Udupi A Ramagopal, Miroslawa Dauter, Zbigniew Dauter.   

Abstract

A detailed analysis of radiation-damage-induced structural and intensity changes is presented on the model protein thaumatin. Changes in reflection intensities induced by irradiation display a parabolic character. The most pronounced structural changes observed were disulfide-bond breakage and associated main-chain and side-chain movements as well as decarboxylation of aspartate and glutamate residues. The structural changes induced on the sulfur atoms were successfully used to obtain high-quality phase estimates via an RIP procedure. Results obtained with ACORN suggest that the contribution originating from the partial structure may play an important role in phasing even at less than atomic resolution. Copyright 2004 International Union of Crystallography

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Year:  2004        PMID: 15159568     DOI: 10.1107/S0907444904007917

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


  25 in total

1.  High-resolution structure of the recombinant sweet-tasting protein thaumatin I.

Authors:  Tetsuya Masuda; Keisuke Ohta; Bunzo Mikami; Naofumi Kitabatake
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2011-05-24

2.  De novo protein crystal structure determination from X-ray free-electron laser data.

Authors:  Thomas R M Barends; Lutz Foucar; Sabine Botha; R Bruce Doak; Robert L Shoeman; Karol Nass; Jason E Koglin; Garth J Williams; Sébastien Boutet; Marc Messerschmidt; Ilme Schlichting
Journal:  Nature       Date:  2013-11-24       Impact factor: 49.962

3.  Identification of patterns in diffraction intensities affected by radiation exposure.

Authors:  Dominika Borek; Zbigniew Dauter; Zbyszek Otwinowski
Journal:  J Synchrotron Radiat       Date:  2012-12-06       Impact factor: 2.616

4.  XANES measurements of the rate of radiation damage to selenomethionine side chains.

Authors:  James M Holton
Journal:  J Synchrotron Radiat       Date:  2006-12-15       Impact factor: 2.616

5.  Radiation damage in protein crystals is reduced with a micron-sized X-ray beam.

Authors:  Ruslan Sanishvili; Derek W Yoder; Sudhir Babu Pothineni; Gerd Rosenbaum; Shenglan Xu; Stefan Vogt; Sergey Stepanov; Oleg A Makarov; Stephen Corcoran; Richard Benn; Venugopalan Nagarajan; Janet L Smith; Robert F Fischetti
Journal:  Proc Natl Acad Sci U S A       Date:  2011-03-28       Impact factor: 11.205

6.  Real-space analysis of radiation-induced specific changes with independent component analysis.

Authors:  Dominika Borek; Raquel Bromberg; Johan Hattne; Zbyszek Otwinowski
Journal:  J Synchrotron Radiat       Date:  2018-02-22       Impact factor: 2.616

7.  Conformational changes of glucose/galactose-binding protein illuminated by open, unliganded, and ultra-high-resolution ligand-bound structures.

Authors:  M Jack Borrok; Laura L Kiessling; Katrina T Forest
Journal:  Protein Sci       Date:  2007-05-01       Impact factor: 6.725

8.  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

9.  Diffraction data analysis in the presence of radiation damage.

Authors:  Dominika Borek; Marcin Cymborowski; Mischa Machius; Wladek Minor; Zbyszek Otwinowski
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24

10.  The minimum crystal size needed for a complete diffraction data set.

Authors:  James M Holton; Kenneth A Frankel
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24
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