5QA5

OXA-48 IN COMPLEX WITH COMPOUND 3b

5QA5 の概要

• エントリーDOI: 10.2210/pdb5qa5/pdb
• Group deposition: A focused fragment library targeting the antibiotic resistance enzyme - oxacillinase-48: synthesis, structural evaluation and inhibitor design (G_1002027)
• 分子名称: Beta-lactamase, 3-(3-methylphenyl)benzoic acid, 1,2-ETHANEDIOL, ... (5 entities in total)
• 機能のキーワード: oxacillinase, inhibitor, complex, oxa, antibiotic resistance, beta-lactamase, fragment, hydrolase
• 由来する生物種: Klebsiella pneumoniae
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 114421.75

構造登録者

Lund, B.A.,Leiros, H.K.S. (登録日: 2017-07-11, 公開日: 2018-01-10, 最終更新日: 2023-11-15)

主引用文献

Akhter, S.,Lund, B.A.,Ismael, A.,Langer, M.,Isaksson, J.,Christopeit, T.,Leiros, H.S.,Bayer, A.
A focused fragment library targeting the antibiotic resistance enzyme - Oxacillinase-48: Synthesis, structural evaluation and inhibitor design.
Eur J Med Chem, 145:634-648, 2018

PubMed Abstract: β-Lactam antibiotics are of utmost importance when treating bacterial infections in the medical community. However, currently their utility is threatened by the emergence and spread of β-lactam resistance. The most prevalent resistance mechanism to β-lactam antibiotics is expression of β-lactamase enzymes. One way to overcome resistance caused by β-lactamases, is the development of β-lactamase inhibitors and today several β-lactamase inhibitors e.g. avibactam, are approved in the clinic. Our focus is the oxacillinase-48 (OXA-48), an enzyme reported to spread rapidly across the world and commonly identified in Escherichia coli and Klebsiella pneumoniae. To guide inhibitor design, we used diversely substituted 3-aryl and 3-heteroaryl benzoic acids to probe the active site of OXA-48 for useful enzyme-inhibitor interactions. In the presented study, a focused fragment library containing 49 3-substituted benzoic acid derivatives were synthesised and biochemically characterized. Based on crystallographic data from 33 fragment-enzyme complexes, the fragments could be classified into R or R binders by their overall binding conformation in relation to the binding of the R and R side groups of imipenem. Moreover, binding interactions attractive for future inhibitor design were found and their usefulness explored by the rational design and evaluation of merged inhibitors from orthogonally binding fragments. The best inhibitors among the resulting 3,5-disubstituted benzoic acids showed inhibitory potential in the low micromolar range (IC = 2.9 μM). For these inhibitors, the complex X-ray structures revealed non-covalent binding to Arg250, Arg214 and Tyr211 in the active site and the interactions observed with the mono-substituted fragments were also identified in the merged structures.

PubMed: 29348071
DOI: 10.1016/j.ejmech.2017.12.085

実験手法

X-RAY DIFFRACTION (1.95 Å)