Literature DB >> 24598924

Tetartohedral twinning in IDI-2 from Thermus thermophilus: crystallization under anaerobic conditions.

Jerome de Ruyck1, Heidi L Schubert2, Matthew W Janczak3, C Dale Poulter3.   

Abstract

Type-2 isopentenyl diphosphate isomerase (IDI-2) is a key flavoprotein involved in the biosynthesis of isoprenoids. Since fully reduced flavin mononucleotide (FMNH2) is needed for activity, it was decided to crystallize the enzyme under anaerobic conditions in order to understand how this reduced cofactor binds within the active site and interacts with the substrate isopentenyl diphosphate (IPP). In this study, the protein was expressed and purified under aerobic conditions and then reduced and crystallized under anaerobic conditions. Crystals grown by the sitting-drop vapour-diffusion method and then soaked with IPP diffracted to 2.1 Å resolution and belonged to the hexagonal space group P6322, with unit-cell parameters a = b = 133.3, c = 172.9 Å.

Entities:  

Keywords:  IDI-2; anaerobic; flavoprotein; isopentenyl diphosphate isomerase; isoprenoid; twinning

Mesh:

Substances:

Year:  2014        PMID: 24598924      PMCID: PMC3944699          DOI: 10.1107/S2053230X14002143

Source DB:  PubMed          Journal:  Acta Crystallogr F Struct Biol Commun        ISSN: 2053-230X            Impact factor:   1.056


  8 in total

1.  XDS.

Authors:  Wolfgang Kabsch
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-01-22

2.  Substrate-induced change in the quaternary structure of type 2 isopentenyl diphosphate isomerase from Sulfolobus shibatae.

Authors:  Hitomi Nakatani; Shuichiro Goda; Hideaki Unno; Takuya Nagai; Tohru Yoshimura; Hisashi Hemmi
Journal:  J Bacteriol       Date:  2012-04-13       Impact factor: 3.490

Review 3.  Isopentenyl diphosphate isomerase: A checkpoint to isoprenoid biosynthesis.

Authors:  Karine Berthelot; Yannick Estevez; Alain Deffieux; Frédéric Peruch
Journal:  Biochimie       Date:  2012-04-04       Impact factor: 4.079

4.  Covalent modification of reduced flavin mononucleotide in type-2 isopentenyl diphosphate isomerase by active-site-directed inhibitors.

Authors:  Takuya Nagai; Hideaki Unno; Matthew Walter Janczak; Tohru Yoshimura; C Dale Poulter; Hisashi Hemmi
Journal:  Proc Natl Acad Sci U S A       Date:  2011-12-07       Impact factor: 11.205

5.  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

6.  Crystal structure of type 2 isopentenyl diphosphate isomerase from Thermus thermophilus in complex with inorganic pyrophosphate.

Authors:  Jérôme de Ruyck; Jenny Pouyez; Steven C Rothman; Dale Poulter; Johan Wouters
Journal:  Biochemistry       Date:  2008-08-12       Impact factor: 3.162

7.  Kinetic and spectroscopic characterization of type II isopentenyl diphosphate isomerase from Thermus thermophilus: evidence for formation of substrate-induced flavin species.

Authors:  Steven C Rothman; Travis R Helm; C Dale Poulter
Journal:  Biochemistry       Date:  2007-04-12       Impact factor: 3.162

8.  An unusual isopentenyl diphosphate isomerase found in the mevalonate pathway gene cluster from Streptomyces sp. strain CL190.

Authors:  K Kaneda; T Kuzuyama; M Takagi; Y Hayakawa; H Seto
Journal:  Proc Natl Acad Sci U S A       Date:  2001-01-23       Impact factor: 11.205

  8 in total

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