Structural basis for catalysis by the mono- and dimetalated forms of the dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase.
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TLDR
High-resolution X-ray crystal structures of the dapE from Haemophilus influenzae with one and two zinc ions bound in the active site, respectively are reported and a revised catalytic mechanism of peptide bond cleavage by DapE enzymes is proposed.About:
This article is published in Journal of Molecular Biology.The article was published on 2010-04-02 and is currently open access. It has received 55 citations till now. The article focuses on the topics: Peptidoglycan.read more
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Journal ArticleDOI
Structure of apo- and monometalated forms of NDM-1--a highly potent carbapenem-hydrolyzing metallo-β-lactamase.
Youngchang Kim,Christine Tesar,Joseph Mire,Robert Jedrzejczak,Andrew Binkowski,Gyorgy Babnigg,James C. Sacchettini,Andrzej Joachimiak,Andrzej Joachimiak +8 more
TL;DR: The crystal structures of metal-free apo- and monozinc forms of NDM-1 presented here revealed an enlarged and flexible active site of class B1 metallo-β-lactamase, capable of accommodating many β- lactam substrates by having many of the catalytic residues on flexible loops, which explains the observed extended spectrum activity of this zinc dependent β-l lactamase.
Journal ArticleDOI
Lysine biosynthesis in bacteria: a metallodesuccinylase as a potential antimicrobial target
TL;DR: In this review, the recent literature on dapE-encoded N-succinyl-l,l-diaminopimelic acid desuccinylase (DapE) enzymes is summarized, with an emphasis on structure–function studies that provide insight into the catalytic mechanism.
Journal ArticleDOI
Structure-guided, single-point modifications in the phosphinic dipeptide structure yield highly potent and selective inhibitors of neutral aminopeptidases.
Stamatia Vassiliou,Ewelina Węglarz-Tomczak,Łukasz Berlicki,Małgorzata Pawełczak,Boguslaw Nocek,Rory Mulligan,Andrzej Joachimiak,Artur Mucha +7 more
TL;DR: Seven crystal structures of alanyl aminopeptidase from Neisseria meningitides complexed with organophosphorus compounds were resolved to determine the optimal inhibitor–enzyme interactions, and novel contacts, which were promising for inhibitor development, were identified.
Journal ArticleDOI
Bifidobacterial biofilm formation is a multifactorial adaptive phenomenon in response to bile exposure.
Sandra M Kelly,Noreen Lanigan,Ian J O'Neill,Francesca Bottacini,Gabriele Andrea Lugli,Alice Viappiani,Francesca Turroni,Marco Ventura,Douwe van Sinderen +8 more
TL;DR: It is proposed that bifidobacterial biofilm formation is an adaptive response to high concentrations of bile in order to avoid bactericidal effects of high bile concentrations in the gastrointestinal environment.
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Zinc-selective inhibition of the promiscuous bacterial amide-hydrolase DapE: implications of metal heterogeneity for evolution and antibiotic drug design.
Narasimha Rao Uda,Gregory Upert,Gaetano Angelici,Stefan Nicolet,Tobias Schmidt,Torsten Schwede,Marc Creus +6 more
TL;DR: It is shown that L-captopril targets only the Zn( 2+)-metallo-isoform of the enzyme, whereas the Mn(2+)-enzyme, which is also a physiologically relevant isoform in bacteria, is not inhibited.
References
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Book ChapterDOI
Processing of X-ray diffraction data collected in oscillation mode
Zbyszek Otwinowski,Wladek Minor +1 more
TL;DR: The methods presented in the chapter have been applied to solve a large variety of problems, from inorganic molecules with 5 A unit cell to rotavirus of 700 A diameters crystallized in 700 × 1000 × 1400 A cell.
Journal ArticleDOI
Coot: model-building tools for molecular graphics.
Paul Emsley,Kevin Cowtan +1 more
TL;DR: CCP4mg is a project that aims to provide a general-purpose tool for structural biologists, providing tools for X-ray structure solution, structure comparison and analysis, and publication-quality graphics.
Journal ArticleDOI
The CCP4 suite: programs for protein crystallography
TL;DR: The CCP4 (Collaborative Computational Project, number 4) program suite is a collection of programs and associated data and subroutine libraries which can be used for macromolecular structure determination by X-ray crystallography.
Journal ArticleDOI
Refinement of macromolecular structures by the maximum-likelihood method.
TL;DR: The likelihood function for macromolecular structures is extended to include prior phase information and experimental standard uncertainties and the results derived are consistently better than those obtained from least-squares refinement.