Literature DB >> 22628655

Structures from anomalous diffraction of native biological macromolecules.

Qun Liu1, Tassadite Dahmane, Zhen Zhang, Zahra Assur, Julia Brasch, Lawrence Shapiro, Filippo Mancia, Wayne A Hendrickson.   

Abstract

Crystal structure analyses for biological macromolecules without known structural relatives entail solving the crystallographic phase problem. Typical de novo phase evaluations depend on incorporating heavier atoms than those found natively; most commonly, multi- or single-wavelength anomalous diffraction (MAD or SAD) experiments exploit selenomethionyl proteins. Here, we realize routine structure determination using intrinsic anomalous scattering from native macromolecules. We devised robust procedures for enhancing the signal-to-noise ratio in the slight anomalous scattering from generic native structures by combining data measured from multiple crystals at lower-than-usual x-ray energy. Using this multicrystal SAD method (5 to 13 equivalent crystals), we determined structures at modest resolution (2.8 to 2.3 angstroms) for native proteins varying in size (127 to 1148 unique residues) and number of sulfur sites (3 to 28). With no requirement for heavy-atom incorporation, such experiments provide an attractive alternative to selenomethionyl SAD experiments.

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Year:  2012        PMID: 22628655      PMCID: PMC3769101          DOI: 10.1126/science.1218753

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  20 in total

1.  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

2.  Soft X-rays, high redundancy, and proper scaling: a new procedure for automated protein structure determination via SAS.

Authors:  M S Weiss; T Sicker; R Hilgenfeld
Journal:  Structure       Date:  2001-09       Impact factor: 5.006

3.  Away from the edge: SAD phasing from the sulfur anomalous signal measured in-house with chromium radiation.

Authors:  Cheng Yang; J W Pflugrath; D A Courville; C N Stence; Joseph D Ferrara
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2003-10-23

4.  Substructure solution with SHELXD.

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

5.  On the influence of the incident photon energy on the radiation damage in crystalline biological samples.

Authors:  Manfred S Weiss; Santosh Panjikar; Christoph Mueller-Dieckmann; Paul A Tucker
Journal:  J Synchrotron Radiat       Date:  2005-04-14       Impact factor: 2.616

6.  On the routine use of soft X-rays in macromolecular crystallography. Part III. The optimal data-collection wavelength.

Authors:  Christoph Mueller-Dieckmann; Santosh Panjikar; Paul A Tucker; Manfred S Weiss
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2005-08-16

7.  The interdependence of wavelength, redundancy and dose in sulfur SAD experiments.

Authors:  Michele Cianci; John R Helliwell; Atsuo Suzuki
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2008-11-18

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.  Selenomethionyl proteins produced for analysis by multiwavelength anomalous diffraction (MAD): a vehicle for direct determination of three-dimensional structure.

Authors:  W A Hendrickson; J R Horton; D M LeMaster
Journal:  EMBO J       Date:  1990-05       Impact factor: 11.598

Review 10.  Scaling and assessment of data quality.

Authors:  Philip Evans
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2005-12-14
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  84 in total

1.  Acoustic methods for high-throughput protein crystal mounting at next-generation macromolecular crystallographic beamlines.

Authors:  Christian G Roessler; Anthony Kuczewski; Richard Stearns; Richard Ellson; Joseph Olechno; Allen M Orville; Marc Allaire; Alexei S Soares; Annie Héroux
Journal:  J Synchrotron Radiat       Date:  2013-08-08       Impact factor: 2.616

2.  Structural basis for RNA recognition by a dimeric PPR-protein complex.

Authors:  Jiyuan Ke; Run-Ze Chen; Ting Ban; X Edward Zhou; Xin Gu; M H Eileen Tan; Chen Chen; Yanyong Kang; Joseph S Brunzelle; Jian-Kang Zhu; Karsten Melcher; H Eric Xu
Journal:  Nat Struct Mol Biol       Date:  2013-11-03       Impact factor: 15.369

3.  Structural Evidence for Dimer-Interface-Driven Regulation of the Type II Cysteine Desulfurase, SufS.

Authors:  Jack A Dunkle; Michael R Bruno; F Wayne Outten; Patrick A Frantom
Journal:  Biochemistry       Date:  2019-01-07       Impact factor: 3.162

Review 4.  Atomic-level analysis of membrane-protein structure.

Authors:  Wayne A Hendrickson
Journal:  Nat Struct Mol Biol       Date:  2016-06-07       Impact factor: 15.369

5.  In situ serial Laue diffraction on a microfluidic crystallization device.

Authors:  Sarah L Perry; Sudipto Guha; Ashtamurthy S Pawate; Robert Henning; Irina Kosheleva; Vukica Srajer; Paul J A Kenis; Zhong Ren
Journal:  J Appl Crystallogr       Date:  2014-11-18       Impact factor: 3.304

6.  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

7.  Fast native-SAD phasing for routine macromolecular structure determination.

Authors:  Tobias Weinert; Vincent Olieric; Sandro Waltersperger; Ezequiel Panepucci; Lirong Chen; Hua Zhang; Dayong Zhou; John Rose; Akio Ebihara; Seiki Kuramitsu; Dianfan Li; Nicole Howe; Gisela Schnapp; Alexander Pautsch; Katja Bargsten; Andrea E Prota; Parag Surana; Jithesh Kottur; Deepak T Nair; Federica Basilico; Valentina Cecatiello; Sebastiano Pasqualato; Andreas Boland; Oliver Weichenrieder; Bi-Cheng Wang; Michel O Steinmetz; Martin Caffrey; Meitian Wang
Journal:  Nat Methods       Date:  2014-12-15       Impact factor: 28.547

8.  Towards time-resolved serial crystallography in a microfluidic device.

Authors:  Ashtamurthy S Pawate; Vukica Šrajer; Jeremy Schieferstein; Sudipto Guha; Robert Henning; Irina Kosheleva; Marius Schmidt; Zhong Ren; Paul J A Kenis; Sarah L Perry
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-06-27       Impact factor: 1.056

Review 9.  Serial Femtosecond Crystallography of G Protein-Coupled Receptors.

Authors:  Benjamin Stauch; Vadim Cherezov
Journal:  Annu Rev Biophys       Date:  2018-03-15       Impact factor: 12.981

Review 10.  Influences of membrane mimetic environments on membrane protein structures.

Authors:  Huan-Xiang Zhou; Timothy A Cross
Journal:  Annu Rev Biophys       Date:  2013-03-01       Impact factor: 12.981

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