7CNE

Crystal Structure of Sphingomyelinase C from Streptomyces griseocarneus

「3WCX」から置き換えられました

7CNE の概要

• エントリーDOI: 10.2210/pdb7cne/pdb
• 分子名称: Sphingomyelinase C, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, SUCCINIC ACID, ... (4 entities in total)
• 機能のキーワード: sphingomyelinase c, streptomyces griseocarneus, metal-binding site, hydrolase
• 由来する生物種: Streptomyces griseocarneus
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 32572.72

構造登録者

Murayama, K.,Fujisawa, I.,Sugimori, D. (登録日: 2020-07-31, 公開日: 2020-10-28, 最終更新日: 2023-11-29)

主引用文献

Fujisawa, I.,Hamana, H.,Tomita, Y.,Matsumoto, Y.,Murayama, K.,Sugimori, D.
Structural basis for the high thermal stability and optimum pH of sphingomyelinase C from Streptomyces griseocarneus.
J.Biosci.Bioeng., 131:8-12, 2021

PubMed Abstract: Sphingomyelinase C (SMC) hydrolyzes sphingomyelin to ceramide and phosphocholine. Prokaryotic SMCs share sequence homology with mammalian SMCs that have enzymatic pH optima at neutral pH. SMC from the nonpathogenic prokaryote Streptomyces griseocarneus shows notable enzymatic features such as higher optimum pH and thermostability than other prokaryotic SMCs. Determination of the three-dimensional structure of S. griseocarneus-SMC (Sg-SMC) and comparison with other SMC structures represents a promising strategy to elucidate the unique enzymatic features of Sg-SMC on a structural basis. Therefore, we determined the crystal structure of Sg-SMC at 2.0 Å resolution by X-ray crystallography. Comparison of the Sg-SMC structure with three other structurally known SMCs from Listeria ivanovii, Bacillus cereus, and Staphylococcus aureus indicated that Sg-SMC is more diverse in sequence and that structural differences in the main chain between these SMCs are primarily located on the molecular surface distant from the active site. Comparison of the surface area of the four SMCs revealed that Sg-SMC has the most compact structure, which may contribute to the enhanced thermostability of Sg-SMC. Regarding the hydrogen bond network in the active site of Sg-SMC, a basic amino acid, Arg278, is involved, whereas the corresponding residue in other SMCs (Ser or Asn) does not form hydrogen bonds with metal-coordinating water molecules. Hydrogen bond formation between Arg278 and a Mg ion-coordinating water molecule may be responsible for the higher optimal pH of Sg-SMC compared to that of other SMCs.

PubMed: 33023861
DOI: 10.1016/j.jbiosc.2020.09.005

実験手法

X-RAY DIFFRACTION (2 Å)