2VW2

Crystal structure of the NanB sialidase from Streptococcus pneumoniae

2VW2 の概要

• エントリーDOI: 10.2210/pdb2vw2/pdb
• 関連するPDBエントリー: 2VW0 2VW1
• 分子名称: SIALIDASE B, 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, GLYCEROL, ... (4 entities in total)
• 機能のキーワード: hydrolase, sialidase, glycosidase, drug design, neuraminidase, virulence factor
• 由来する生物種: STREPTOCOCCUS PNEUMONIAE
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 78287.56

構造登録者

Xu, G.,Potter, J.A.,Russell, R.J.M.,Oggioni, M.R.,Andrew, P.W.,Taylor, G.L. (登録日: 2008-06-13, 公開日: 2008-06-24, 最終更新日: 2023-12-13)

主引用文献

Xu, G.,Potter, J.A.,Russell, R.J.M.,Oggioni, M.R.,Andrew, P.W.,Taylor, G.L.
Crystal Structure of the Nanb Sialidase from Streptococcus Pneumoniae
J.Mol.Biol., 384:436-, 2008

PubMed Abstract: The Streptococcus pneumoniae genomes encode up to three sialidases (or neuraminidases), NanA, NanB and NanC, which are believed to be involved in removing sialic acid from host cell surface glycans, thereby promoting colonization of the upper respiratory tract. Here, we present the crystal structure of NanB to 1.7 A resolution derived from a crystal grown in the presence of the buffer Ches (2-N-cyclohexylaminoethanesulfonic acid). Serendipitously, Ches was found bound to NanB at the enzyme active site, and was found to inhibit NanB with a K(i) of approximately 0.5 mM. In addition, we present the structure to 2.4 A resolution of NanB in complex with the transition-state analogue Neu5Ac2en (2-deoxy-2,3-dehydro-N-acetyl neuraminic acid), which inhibits NanB with a K(i) of approximately 0.3 mM. The sulphonic acid group of Ches and carboxylic acid group of Neu5Ac2en interact with the arginine triad of the active site. The cyclohexyl group of Ches binds in the hydrophobic pocket of NanB occupied by the acetamidomethyl group of Neu5Ac2en. The topology around the NanB active site suggests that the enzyme would have a preference for alpha2,3-linked sialoglycoconjugates, which is confirmed by a kinetic analysis of substrate binding. NMR studies also confirm this preference and show that, like the leech sialidase, NanB acts as an intramolecular trans-sialidase releasing Neu2,7-anhydro5Ac. All three pneumoccocal sialidases possess a carbohydrate-binding domain that is predicted to bind sialic acid. These studies provide support for a possible differential role for NanB compared to NanA in pneumococcal virulence.

PubMed: 18835278
DOI: 10.1016/J.JMB.2008.09.032

実験手法

X-RAY DIFFRACTION (1.7 Å)