6LU2

Crystal structure of a substrate binding protein from Microbacterium hydrocarbonoxydans

6LU2 の概要

• エントリーDOI: 10.2210/pdb6lu2/pdb
• 分子名称: Substrate binding protein (2 entities in total)
• 機能のキーワード: complex, transport protein
• 由来する生物種: Microbacterium hydrocarbonoxydans
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 53867.19

構造登録者

Shimamura, K.,Akiyama, T.,Yokoyama, K.,Takenoya, M.,Ito, S.,Sasaki, Y.,Yajima, S. (登録日: 2020-01-25, 公開日: 2020-03-25, 最終更新日: 2024-11-13)

主引用文献

Shimamura, K.,Akiyama, T.,Yokoyama, K.,Takenoya, M.,Ito, S.,Sasaki, Y.,Yajima, S.
Structural basis of substrate recognition by the substrate binding protein (SBP) of a hydrazide transporter, obtained from Microbacterium hydrocarbonoxydans.
Biochem.Biophys.Res.Commun., 525:720-725, 2020

PubMed Abstract: Microbacterium hydrocarbonoxydans was isolated, using hydrazide compounds as its sole carbon source. The key enzyme that metabolizes these compounds was identified as hydrazidase, and the operon containing the gene coding for the enzyme, was revealed by genome sequencing. The operon also contained genes coding for an ATP-binding cassette transporter (ABC transporter), which was expected to transport the hydrazide compounds. Substrate binding protein (SBP), a component subunit of the transporter, plays an important role in recognizing the correct substrates for transport. Therefore, to elucidate the mechanism of recognition of the unnatural hydrazide compounds, we determined the crystal structures of the SBP, obtained from M. hydrocarbonoxydans (Mh-SBP), complexed with and without the hydrazide compound, at 2.2 Å and 1.75 Å resolutions, respectively. The overall structures of Mh-SBP were similar to those of the SBP in oligopeptide transporters such as OppA. On comparison, the liganded and unliganded structures of Mh-SBP showed an open - close conformation change. Interestingly, the binding mode of the compound to Mh-SBP was almost identical to that of the compound to hydrazidase, suggesting that the ABC transporter served transporting these compounds. Furthermore, based on the hydrazide complex structure, paraben, the other putative substrate of the protein, was successfully used with Mh-SBP to obtain the paraben complex structure.

PubMed: 32143826
DOI: 10.1016/j.bbrc.2020.02.146

実験手法

X-RAY DIFFRACTION (1.75 Å)