Literature DB >> 23192028

Inorganic pyrophosphatase crystals from Thermococcus thioreducens for X-ray and neutron diffraction.

Ronny C Hughes1, Leighton Coates, Matthew P Blakeley, Steve J Tomanicek, Paul Langan, Andrey Y Kovalevsky, Juan M García-Ruiz, Joseph D Ng.   

Abstract

Inorganic pyrophosphatase (IPPase) from the archaeon Thermococcus thioreducens was cloned, overexpressed in Escherichia coli, purified and crystallized in restricted geometry, resulting in large crystal volumes exceeding 5 mm3. IPPase is thermally stable and is able to resist denaturation at temperatures above 348 K. Owing to the high temperature tolerance of the enzyme, the protein was amenable to room-temperature manipulation at the level of protein preparation, crystallization and X-ray and neutron diffraction analyses. A complete synchrotron X-ray diffraction data set to 1.85 Å resolution was collected at room temperature from a single crystal of IPPase (monoclinic space group C2, unit-cell parameters a=106.11, b=95.46, c=113.68 Å, α=γ=90.0, β=98.12°). As large-volume crystals of IPPase can be obtained, preliminary neutron diffraction tests were undertaken. Consequently, Laue diffraction images were obtained, with reflections observed to 2.1 Å resolution with I/σ(I) greater than 2.5. The preliminary crystallographic results reported here set in place future structure-function and mechanism studies of IPPase.

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Year:  2012        PMID: 23192028      PMCID: PMC3509969          DOI: 10.1107/S1744309112032447

Source DB:  PubMed          Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun        ISSN: 1744-3091


  24 in total

Review 1.  Protein crystallization by capillary counterdiffusion for applied crystallographic structure determination.

Authors:  Joseph D Ng; José A Gavira; Juan M García-Ruíz
Journal:  J Struct Biol       Date:  2003-04       Impact factor: 2.867

2.  Isolation, crystallization and preliminary X-ray analysis of a methanol-induced corrinoid protein from Moorella thermoacetica.

Authors:  Weihong Zhou; Amaresh Das; Jeff E Habel; Zhi-Jie Liu; Jessie Chang; Lirong Chen; Doowon Lee; Duong Nguyen; Shu-Huey Chang; Wolfram Tempel; John P Rose; Lars G Ljungdahl; Bi-Cheng Wang
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2005-04-28

3.  Crystal structure of holo inorganic pyrophosphatase from Escherichia coli at 1.9 A resolution. Mechanism of hydrolysis.

Authors:  E H Harutyunyan; V Y Oganessyan; N N Oganessyan; S M Avaeva; T I Nazarova; N N Vorobyeva; S A Kurilova; R Huber; T Mather
Journal:  Biochemistry       Date:  1997-06-24       Impact factor: 3.162

4.  Solvent content of protein crystals.

Authors:  B W Matthews
Journal:  J Mol Biol       Date:  1968-04-28       Impact factor: 5.469

5.  Sulfolobus acidocaldarius inorganic pyrophosphatase: structure, thermostability, and effect of metal ion in an archael pyrophosphatase.

Authors:  V M Leppänen; H Nummelin; T Hansen; R Lahti; G Schäfer; A Goldman
Journal:  Protein Sci       Date:  1999-06       Impact factor: 6.725

6.  Crystal structure of Streptococcus mutans pyrophosphatase: a new fold for an old mechanism.

Authors:  M C Merckel; I P Fabrichniy; A Salminen; N Kalkkinen; A A Baykov; R Lahti; A Goldman
Journal:  Structure       Date:  2001-04-04       Impact factor: 5.006

7.  A complete structural description of the catalytic cycle of yeast pyrophosphatase.

Authors:  Esko Oksanen; Anna-Karoliina Ahonen; Heidi Tuominen; Vesa Tuominen; Reijo Lahti; Adrian Goldman; Pirkko Heikinheimo
Journal:  Biochemistry       Date:  2007-02-06       Impact factor: 3.162

8.  Ab initio crystallographic structure determination of insulin from protein to electron density without crystal handling.

Authors:  José A Gavira; Diana Toh; Javier Lopéz-Jaramillo; Juan M García-Ruíz; Joseph D Ng
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2002-06-20

9.  Crystal structure of the hyperthermophilic inorganic pyrophosphatase from the archaeon Pyrococcus horikoshii.

Authors:  Binbin Liu; Mark Bartlam; Renjun Gao; Weihong Zhou; Hai Pang; Yiwei Liu; Yan Feng; Zihe Rao
Journal:  Biophys J       Date:  2004-01       Impact factor: 4.033

10.  Generalized X-ray and neutron crystallographic analysis: more accurate and complete structures for biological macromolecules.

Authors:  Paul D Adams; Marat Mustyakimov; Pavel V Afonine; Paul Langan
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-05-15
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  8 in total

1.  Effects of pressure on the dynamics of an oligomeric protein from deep-sea hyperthermophile.

Authors:  Utsab R Shrestha; Debsindhu Bhowmik; John R D Copley; Madhusudan Tyagi; Juscelino B Leão; Xiang-qiang Chu
Journal:  Proc Natl Acad Sci U S A       Date:  2015-10-26       Impact factor: 11.205

2.  Large-volume protein crystal growth for neutron macromolecular crystallography.

Authors:  Joseph D Ng; James K Baird; Leighton Coates; Juan M Garcia-Ruiz; Teresa A Hodge; Sijay Huang
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-03-30       Impact factor: 1.056

3.  Mesophilic Pyrophosphatase Function at High Temperature: A Molecular Dynamics Simulation Study.

Authors:  Rupesh Agarwal; Utsab R Shrestha; Xiang-Qiang Chu; Loukas Petridis; Jeremy C Smith
Journal:  Biophys J       Date:  2020-05-29       Impact factor: 4.033

4.  Seeing the chemistry in biology with neutron crystallography.

Authors:  Paul Langan; Julian C-H Chen
Journal:  Phys Chem Chem Phys       Date:  2013-07-15       Impact factor: 3.676

5.  Archaeal Inorganic Pyrophosphatase Displays Robust Activity under High-Salt Conditions and in Organic Solvents.

Authors:  Lana J McMillan; Nathaniel L Hepowit; Julie A Maupin-Furlow
Journal:  Appl Environ Microbiol       Date:  2015-11-06       Impact factor: 4.792

Review 6.  Sub-atomic resolution X-ray crystallography and neutron crystallography: promise, challenges and potential.

Authors:  Matthew P Blakeley; Samar S Hasnain; Svetlana V Antonyuk
Journal:  IUCrJ       Date:  2015-06-30       Impact factor: 4.769

7.  Use of Cross-Linked Poly(ethylene glycol)-Based Hydrogels for Protein Crystallization.

Authors:  Jose A Gavira; Andry Cera-Manjarres; Katia Ortiz; Janet Mendez; Jose A Jimenez-Torres; Luis D Patiño-Lopez; Madeline Torres-Lugo
Journal:  Cryst Growth Des       Date:  2014-05-14       Impact factor: 4.076

8.  Ewald: an extended wide-angle Laue diffractometer for the second target station of the Spallation Neutron Source.

Authors:  Leighton Coates; Lee Robertson
Journal:  J Appl Crystallogr       Date:  2017-07-26       Impact factor: 3.304

  8 in total

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