Literature DB >> 18607102

Purification, crystallization and preliminary X-ray diffraction studies to near-atomic resolution of dihydrodipicolinate synthase from methicillin-resistant Staphylococcus aureus.

Benjamin R Burgess1, Renwick C J Dobson, Con Dogovski, Geoffrey B Jameson, Michael W Parker, Matthew A Perugini.   

Abstract

In recent years, dihydrodipicolinate synthase (DHDPS; EC 4.2.1.52) has received considerable attention from both mechanistic and structural viewpoints. DHDPS is part of the diaminopimelate pathway leading to lysine, coupling (S)-aspartate-beta-semialdehyde with pyruvate via a Schiff base to a conserved active-site lysine. In this paper, the cloning, expression, purification, crystallization and preliminary X-ray diffraction analysis of DHDPS from methicillin-resistant Staphylococcus aureus, an important bacterial pathogen, are reported. The enzyme was crystallized in a number of forms, predominantly from PEG precipitants, with the best crystal diffracting to beyond 1.45 A resolution. The space group was P1 and the unit-cell parameters were a = 65.4, b = 67.6, c = 78.0 A, alpha = 90.1, beta = 68.9, gamma = 72.3 degrees . The crystal volume per protein weight (V(M)) was 2.34 A(3) Da(-1), with an estimated solvent content of 47% for four monomers per asymmetric unit. The structure of the enzyme will help to guide the design of novel therapeutics against the methicillin-resistant S. aureus pathogen.

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Year:  2008        PMID: 18607102      PMCID: PMC2443978          DOI: 10.1107/S1744309108016746

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


  26 in total

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Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2005-09-28

2.  Inhibiting dihydrodipicolinate synthase across species: towards specificity for pathogens?

Authors:  Voula Mitsakos; Renwick C J Dobson; F Grant Pearce; Sean R Devenish; Genevieve L Evans; Benjamin R Burgess; Matthew A Perugini; Juliet A Gerrard; Craig A Hutton
Journal:  Bioorg Med Chem Lett       Date:  2007-11-13       Impact factor: 2.823

3.  Crystal structure and kinetic study of dihydrodipicolinate synthase from Mycobacterium tuberculosis.

Authors:  Georgia Kefala; Genevieve L Evans; Michael D W Griffin; Sean R A Devenish; F Grant Pearce; Matthew A Perugini; Juliet A Gerrard; Manfred S Weiss; Renwick C J Dobson
Journal:  Biochem J       Date:  2008-04-15       Impact factor: 3.857

4.  Dihydrodipicolinate synthase ofnicotiana sylvestris, a chloroplast-localized enzyme of the lysine pathway.

Authors:  M Ghislain; V Frankard; M Jacobs
Journal:  Planta       Date:  1990-03       Impact factor: 4.116

5.  Role of arginine 138 in the catalysis and regulation of Escherichia coli dihydrodipicolinate synthase.

Authors:  Renwick C J Dobson; Sean R A Devenish; Leighton A Turner; Veronica R Clifford; F Grant Pearce; Geoffrey B Jameson; Juliet A Gerrard
Journal:  Biochemistry       Date:  2005-10-04       Impact factor: 3.162

6.  The crystal structures of native and (S)-lysine-bound dihydrodipicolinate synthase from Escherichia coli with improved resolution show new features of biological significance.

Authors:  Renwick C J Dobson; Michael D W Griffin; Geoffrey B Jameson; Juliet A Gerrard
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2005-07-20

7.  Solvent content of protein crystals.

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

8.  The condensation step in diaminopimelate synthesis.

Authors:  Y Yugari; C Gilvarg
Journal:  J Biol Chem       Date:  1965-12       Impact factor: 5.157

9.  Escherichia coli dihydrodipicolinate synthase. Identification of the active site and crystallization.

Authors:  B Laber; F X Gomis-Rüth; M J Romão; R Huber
Journal:  Biochem J       Date:  1992-12-01       Impact factor: 3.857

10.  Dihydrodipicolinate synthase is not inhibited by its substrate, (S)-aspartate beta-semialdehyde.

Authors:  Renwick C J Dobson; Juliet A Gerrard; F Grant Pearce
Journal:  Biochem J       Date:  2004-02-01       Impact factor: 3.857

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  11 in total

1.  Cloning, expression, purification and crystallization of dihydrodipicolinate synthase from the grapevine Vitis vinifera.

Authors:  Sarah C Atkinson; Con Dogovski; Janet Newman; Renwick C J Dobson; Matthew A Perugini
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2011-11-25

2.  Molecular Interaction of Novel Compound 2-Methylheptyl Isonicotinate Produced by Streptomyces sp. 201 with Dihydrodipicolinate Synthase (DHDPS) Enzyme of Mycobacterium tuberculosis for its Antibacterial Activity.

Authors:  Salam Pradeep Singh; T C Bora; R L Bezbaruah
Journal:  Indian J Microbiol       Date:  2012-02-05       Impact factor: 2.461

3.  Cloning, expression, purification and crystallization of dihydrodipicolinate synthase from the psychrophile Shewanella benthica.

Authors:  Jacinta M Wubben; Con Dogovski; Renwick C J Dobson; Rachel Codd; Juliet A Gerrard; Michael W Parker; Matthew A Perugini
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2010-10-29

4.  Cloning, expression and crystallization of dihydrodipicolinate reductase from methicillin-resistant Staphylococcus aureus.

Authors:  Sudhir Dommaraju; Michael A Gorman; Con Dogovski; F Grant Pearce; Juliet A Gerrard; Renwick C J Dobson; Michael W Parker; Matthew A Perugini
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2009-12-25

5.  Crystallization and preliminary X-ray diffraction analysis of L,L-diaminopimelate aminotransferase (DapL) from Chlamydomonas reinhardtii.

Authors:  André O Hudson; Irma Girón; Renwick C J Dobson
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2010-12-24

Review 6.  Molecular evolution of an oligomeric biocatalyst functioning in lysine biosynthesis.

Authors:  Tatiana P Soares da Costa; Belinda M Abbott; Anthony R Gendall; Santosh Panjikar; Matthew A Perugini
Journal:  Biophys Rev       Date:  2017-12-05

7.  Crystallization and preliminary X-ray diffraction analysis of dihydrodipicolinate synthase 2 from Arabidopsis thaliana.

Authors:  Michael D W Griffin; Jagan M Billakanti; Juliet A Gerrard; Renwick C J Dobson; F Grant Pearce
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2011-10-27

8.  Crystallization and preliminary X-ray diffraction analysis of diaminopimelate epimerase from Escherichia coli.

Authors:  Lilian Hor; Renwick C J Dobson; Con Dogovski; Craig A Hutton; Matthew A Perugini
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2009-12-25

9.  KiDoQ: using docking based energy scores to develop ligand based model for predicting antibacterials.

Authors:  Aarti Garg; Rupinder Tewari; Gajendra P S Raghava
Journal:  BMC Bioinformatics       Date:  2010-03-11       Impact factor: 3.169

10.  Cloning, expression, purification, crystallization and preliminary X-ray diffraction studies of N-acetylneuraminate lyase from methicillin-resistant Staphylococcus aureus.

Authors:  Rachel A North; Sarah A Kessans; Sarah C Atkinson; Hironori Suzuki; Andrew J A Watson; Benjamin R Burgess; Lauren M Angley; André O Hudson; Arvind Varsani; Michael D W Griffin; Antony J Fairbanks; Renwick C J Dobson
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2013-02-27
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