Literature DB >> 28573582

Contemporary Use of Anomalous Diffraction in Biomolecular Structure Analysis.

Qun Liu1, Wayne A Hendrickson2.   

Abstract

The normal elastic X-ray scattering that depends only on electron density can be modulated by an "anomalous" component due to resonance between X-rays and electronic orbitals. Anomalous scattering thereby precisely identifies atomic species, since orbitals distinguish atomic elements, which enables the multi- and single-wavelength anomalous diffraction (MAD and SAD) methods. SAD now predominates in de novo structure determination of biological macromolecules, and we focus here on the prevailing SAD method. We describe the anomalous phasing theory and the periodic table of phasing elements that are available for SAD experiments, differentiating between those readily accessible for at-resonance experiments and those that can be effective away from an edge. We describe procedures for present-day SAD phasing experiments and we discuss optimization of anomalous signals for challenging applications. We also describe methods for using anomalous signals as molecular markers for tracing and element identification. Emerging developments and perspectives are discussed in brief.

Entities:  

Keywords:  Anomalous scattering; Crystal structure; De novo structure determination; Multiple crystals; Native SAD; Phasing problem

Mesh:

Substances:

Year:  2017        PMID: 28573582      PMCID: PMC5541782          DOI: 10.1007/978-1-4939-7000-1_16

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  76 in total

1.  Density modification for macromolecular phase improvement.

Authors:  K D Cowtan; K Y Zhang
Journal:  Prog Biophys Mol Biol       Date:  1999       Impact factor: 3.667

2.  MAD data collection - current trends.

Authors:  M A Walsh; G Evans; R Sanishvili; I Dementieva; A Joachimiak
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1999-10

3.  The finer things in X-ray diffraction data collection.

Authors:  J W Pflugrath
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1999-10

Review 4.  Screening for phasing atoms in protein crystallography.

Authors:  T J Boggon; L Shapiro
Journal:  Structure       Date:  2000-07-15       Impact factor: 5.006

5.  Multiwavelength anomalous diffraction analysis at the M absorption edges of uranium.

Authors:  Y Liu; C M Ogata; W A Hendrickson
Journal:  Proc Natl Acad Sci U S A       Date:  2001-08-28       Impact factor: 11.205

6.  Anomalous signal of phosphorus used for phasing DNA oligomer: importance of data redundancy.

Authors:  Z Dauter; D A Adamiak
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2001-06-21

7.  How Bijvoet made the difference: the growing power of anomalous scattering.

Authors:  D M Blow
Journal:  Methods Enzymol       Date:  2003       Impact factor: 1.600

8.  Substructure solution with SHELXD.

Authors:  Thomas R Schneider; George M Sheldrick
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2002-09-28

9.  The occupancy of ions in the K+ selectivity filter: charge balance and coupling of ion binding to a protein conformational change underlie high conduction rates.

Authors:  Yufeng Zhou; Roderick MacKinnon
Journal:  J Mol Biol       Date:  2003-11-07       Impact factor: 5.469

10.  A quantitative XANES analysis of the calcium high-affinity binding site of the purple membrane.

Authors:  Francesc Sepulcre; M Grazia Proietti; Maurizio Benfatto; Stefano Della Longa; Joaquin García; Esteve Padrós
Journal:  Biophys J       Date:  2004-07       Impact factor: 4.033

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  8 in total

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3.  Native SAD phasing at room temperature.

Authors:  Jack B Greisman; Kevin M Dalton; Candice J Sheehan; Margaret A Klureza; Igor Kurinov; Doeke R Hekstra
Journal:  Acta Crystallogr D Struct Biol       Date:  2022-07-27       Impact factor: 5.699

4.  Synchrotron microcrystal native-SAD phasing at a low energy.

Authors:  Gongrui Guo; Ping Zhu; Martin R Fuchs; Wuxian Shi; Babak Andi; Yuan Gao; Wayne A Hendrickson; Sean McSweeney; Qun Liu
Journal:  IUCrJ       Date:  2019-05-03       Impact factor: 4.769

5.  Deflating the RNA Mg2+ bubble. Stereochemistry to the rescue!

Authors:  Pascal Auffinger; Eric Ennifar; Luigi D'Ascenzo
Journal:  RNA       Date:  2020-12-02       Impact factor: 4.942

6.  Application of sulfur SAD to small crystals with a large asymmetric unit and anomalous substructure.

Authors:  Tung Chung Mou; Baisen Zeng; Tzanko I Doukov; Stephen R Sprang
Journal:  Acta Crystallogr D Struct Biol       Date:  2022-07-14       Impact factor: 5.699

7.  Fibril Structure Demonstrates the Role of Iodine Labelling on a Pentapeptide Self-Assembly.

Authors:  Alessandro Marchetti; Andrea Pizzi; Greta Bergamaschi; Nicola Demitri; Ulrike Stollberg; Ulf Diederichsen; Claudia Pigliacelli; Pierangelo Metrangolo
Journal:  Chemistry       Date:  2022-02-17       Impact factor: 5.020

Review 8.  Synchrotron Radiation X-ray Diffraction Techniques Applied to Insect Flight Muscle.

Authors:  Hiroyuki Iwamoto
Journal:  Int J Mol Sci       Date:  2018-06-13       Impact factor: 5.923

  8 in total

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