Literature DB >> 27980518

Synchrotron-based macromolecular crystallography module for an undergraduate biochemistry laboratory course.

Kyle M Stiers1, Christopher B Lee1, Jay C Nix2, John J Tanner1, Lesa J Beamer1.   

Abstract

This paper describes the introduction of synchrotron-based macromolecular crystallography (MX) into an undergraduate laboratory class. An introductory 2 week experimental module on MX, consisting of four laboratory sessions and two classroom lectures, was incorporated into a senior-level biochemistry class focused on a survey of biochemical techniques, including the experimental characterization of proteins. Students purified recombinant protein samples, set up crystallization plates and flash-cooled crystals for shipping to a synchrotron. Students then collected X-ray diffraction data sets from their crystals via the remote interface of the Molecular Biology Consortium beamline (4.2.2) at the Advanced Light Source in Berkeley, CA, USA. Processed diffraction data sets were transferred back to the laboratory and used in conjunction with partial protein models provided to the students for refinement and model building. The laboratory component was supplemented by up to 2 h of lectures by faculty with expertise in MX. This module can be easily adapted for implementation into other similar undergraduate classes, assuming the availability of local crystallographic expertise and access to remote data collection at a synchrotron source.

Keywords:  macromolecular crystallography; remote data collection; synchrotron sources; undergraduate education

Year:  2016        PMID: 27980518      PMCID: PMC5140000          DOI: 10.1107/S1600576716016800

Source DB:  PubMed          Journal:  J Appl Crystallogr        ISSN: 0021-8898            Impact factor:   3.304


  15 in total

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Journal:  J Struct Funct Genomics       Date:  2012-01-21

2.  Characterization of recombinant Francisella tularensis acid phosphatase A.

Authors:  Thomas J Reilly; Richard L Felts; Michael T Henzl; Michael J Calcutt; John J Tanner
Journal:  Protein Expr Purif       Date:  2005-05-31       Impact factor: 1.650

3.  Crystal Structures of the histidine acid phosphatase from Francisella tularensis provide insight into substrate recognition.

Authors:  Harkewal Singh; Richard L Felts; Jonathan P Schuermann; Thomas J Reilly; John J Tanner
Journal:  J Mol Biol       Date:  2009-10-21       Impact factor: 5.469

4.  PHENIX: a comprehensive Python-based system for macromolecular structure solution.

Authors:  Paul D Adams; Pavel V Afonine; Gábor Bunkóczi; Vincent B Chen; Ian W Davis; Nathaniel Echols; Jeffrey J Headd; Li-Wei Hung; Gary J Kapral; Ralf W Grosse-Kunstleve; Airlie J McCoy; Nigel W Moriarty; Robert Oeffner; Randy J Read; David C Richardson; Jane S Richardson; Thomas C Terwilliger; Peter H Zwart
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-01-22

5.  Crystallization of a newly discovered histidine acid phosphatase from Francisella tularensis.

Authors:  Richard L Felts; Thomas J Reilly; Michael J Calcutt; John J Tanner
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2005-12-16

Review 6.  High-throughput sample handling and data collection at synchrotrons: embedding the ESRF into the high-throughput gene-to-structure pipeline.

Authors:  A Beteva; F Cipriani; S Cusack; S Delageniere; J Gabadinho; E J Gordon; M Guijarro; D R Hall; S Larsen; L Launer; C B Lavault; G A Leonard; T Mairs; A McCarthy; J McCarthy; J Meyer; E Mitchell; S Monaco; D Nurizzo; P Pernot; R Pieritz; R G B Ravelli; V Rey; W Shepard; D Spruce; D I Stuart; O Svensson; P Theveneau; X Thibault; J Turkenburg; M Walsh; S M McSweeney
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2006-09-19

7.  How good are my data and what is the resolution?

Authors:  Philip R Evans; Garib N Murshudov
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2013-06-13

8.  Development of a shutterless continuous rotation method using an X-ray CMOS detector for protein crystallography.

Authors:  Kazuya Hasegawa; Kunio Hirata; Tetsuya Shimizu; Nobutaka Shimizu; Takaaki Hikima; Seiki Baba; Takashi Kumasaka; Masaki Yamamoto
Journal:  J Appl Crystallogr       Date:  2009-11-17       Impact factor: 3.304

Review 9.  Synchrotron radiation macromolecular crystallography: science and spin-offs.

Authors:  John R Helliwell; Edward P Mitchell
Journal:  IUCrJ       Date:  2015-02-03       Impact factor: 4.769

10.  Personalized biochemistry and biophysics.

Authors:  Brett M Kroncke; Carlos G Vanoye; Jens Meiler; Alfred L George; Charles R Sanders
Journal:  Biochemistry       Date:  2015-04-15       Impact factor: 3.162

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  1 in total

1.  Expanding the structural biology toolbox with single-molecule holography.

Authors:  Federico Forneris; Andrea Mattevi
Journal:  Proc Natl Acad Sci U S A       Date:  2017-02-02       Impact factor: 11.205

  1 in total

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