5D8D

Crystal structure of D-alanine-D-alanine ligase from Acinetobacter baumannii

5D8D の概要

• エントリーDOI: 10.2210/pdb5d8d/pdb
• 分子名称: D-alanine--D-alanine ligase (2 entities in total)
• 機能のキーワード: d-alanine-d-alanine ligase, acinetobacter baumannii, apo structure, drug target, ligase
• 由来する生物種: Acinetobacter baumannii ACICU
• 細胞内の位置: Cytoplasm : B2I1J3
• タンパク質・核酸の鎖数: 6
• 化学式量合計: 200356.48

構造登録者

Huynh, K.H.,Hong, M.K.,Kang, L.W. (登録日: 2015-08-17, 公開日: 2016-08-17, 最終更新日: 2024-03-20)

主引用文献

Huynh, K.H.,Hong, M.K.,Lee, C.,Tran, H.T.,Lee, S.H.,Ahn, Y.J.,Cha, S.S.,Kang, L.W.
The crystal structure of the D-alanine-D-alanine ligase from Acinetobacter baumannii suggests a flexible conformational change in the central domain before nucleotide binding
J. Microbiol., 53:776-782, 2015

PubMed Abstract: Acinetobacter baumannii, which is emerging as a multidrug-resistant nosocomial pathogen, causes a number of diseases, including pneumonia, bacteremia, meningitis, and skin infections. With ATP hydrolysis, the D-alanine-D-alanine ligase (DDL) catalyzes the synthesis of D-alanyl-D-alanine, which is an essential component of bacterial peptidoglycan. In this study, we determined the crystal structure of DDL from A. baumannii (AbDDL) at a resolution of 2.2 Å. The asymmetric unit contained six protomers of AbDDL. Five protomers had a closed conformation in the central domain, while one protomer had an open conformation in the central domain. The central domain with an open conformation did not interact with crystallographic symmetry-related protomers and the conformational change of the central domain was not due to crystal packing. The central domain of AbDDL can have an ensemble of the open and closed conformations before the binding of substrate ATP. The conformational change of the central domain is important for the catalytic activity and the detail information will be useful for the development of inhibitors against AbDDL and putative antibacterial agents against A. baumannii. The AbDDL structure was compared with that of other DDLs that were in complex with potent inhibitors and the catalytic activity of AbDDL was confirmed using enzyme kinetics assays.

PubMed: 26502962
DOI: 10.1007/s12275-015-5475-8

実験手法

X-RAY DIFFRACTION (2.19 Å)