2RI0

Crystal Structure of glucosamine 6-phosphate deaminase (NagB) from S. mutans

2RI0 の概要

• エントリーDOI: 10.2210/pdb2ri0/pdb
• 関連するPDBエントリー: 2RI1
• 分子名称: Glucosamine-6-phosphate deaminase, 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, SODIUM ION, ... (4 entities in total)
• 機能のキーワード: glucosamine 6-phosphate deaminase, carbohydrate metabolism, hydrolase
• 由来する生物種: Streptococcus mutans
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 51641.26

構造登録者

Li, D.,Liu, C.,Li, L.F.,Su, X.D. (登録日: 2007-10-10, 公開日: 2008-03-25, 最終更新日: 2024-03-13)

主引用文献

Liu, C.,Li, D.,Liang, Y.H.,Li, L.F.,Su, X.D.
Ring-opening mechanism revealed by crystal structures of NagB and its ES intermediate complex
J.Mol.Biol., 379:73-81, 2008

PubMed Abstract: Glucosamine 6-phosphate deaminase (NagB) catalyzes the conversion of d-glucosamine 6-phosphate (GlcN6P) to d-fructose 6-phosphate and ammonia. This reaction is the final step of N-acetylglucosamine utilization and decides its metabolic fate. The enzyme from Streptococcus mutans belongs to the monomeric subfamily of NagB. The crystal structure of the native SmuNagB (NagB from S. mutans) presented here, compared with the structures of its homologs BsuNagB (NagB from Bacillus subtilis) and EcoNagB (NagB from E. coli), implies a conformational change of the 'lid' motif in the activation of the monomeric NagB enzyme. We have also captured the enzyme-substrate intermediate complex of the NagB family at low pH, where a remarkable loss of the catalytic activity of SmuNagB was detected. The enzyme-substrate intermediate presents the initial step of the GlcN6P deaminase reaction. The structural evidence (1) supports the alpha-anomer of GlcN6P as the specific natural substrate of NagB; (2) displays the substrate-binding pocket at the active site; and (3) together with the site-directed mutagenesis studies, demonstrates the ring-opening mechanism of an Asn-His-Glu triad that performs the proton transfer from O1 to O5 to open the sugar ring.

PubMed: 18436239
DOI: 10.1016/j.jmb.2008.03.031

実験手法

X-RAY DIFFRACTION (1.6 Å)