4D11

GalNAc-T2 crystal soaked with UDP-5SGalNAc, mEA2 peptide and manganese (Lower resolution dataset)

4D11 の概要

• エントリーDOI: 10.2210/pdb4d11/pdb
• 関連するPDBエントリー: 4D0T 4D0Z
• 分子名称: POLYPEPTIDE GALNAC-TRANSFERASE T2, PEPTIDE, MANGANESE (II) ION, ... (6 entities in total)
• 機能のキーワード: transferase-peptide complex, retaining galnac-t2, substrate-guided sni-type reaction, qm/mm metadynamics, bi-bi kinetic mechanism, substrate specificity, acetamido group, transferase/peptide
• 由来する生物種: HOMO SAPIENS (HUMAN); 詳細
• タンパク質・核酸の鎖数: 11
• 化学式量合計: 395424.98

構造登録者

Lira-Navarrete, E.,Iglesias-Fernandez, J.,Zandberg, W.F.,Companon, I.,Kong, Y.,Corzana, F.,Pinto, B.M.,Clausen, H.,Peregrina, J.M.,Vocadlo, D.,Rovira, C.,Hurtado-Guerrero, R. (登録日: 2014-05-01, 公開日: 2014-05-28, 最終更新日: 2024-11-13)

主引用文献

Lira-Navarrete, E.,Iglesias-Fernandez, J.,Zandberg, W.F.,Companon, I.,Kong, Y.,Corzana, F.,Pinto, B.M.,Clausen, H.,Peregrina, J.M.,Vocadlo, D.,Rovira, C.,Hurtado-Guerrero, R.
Substrate-Guided Front-Face Reaction Revealed by Combined Structural Snapshots and Metadynamics for the Polypeptide N- Acetylgalactosaminyltransferase 2.
Angew.Chem.Int.Ed.Engl., 53:8206-, 2014

PubMed Abstract: The retaining glycosyltransferase GalNAc-T2 is a member of a large family of human polypeptide GalNAc-transferases that is responsible for the post-translational modification of many cell-surface proteins. By the use of combined structural and computational approaches, we provide the first set of structural snapshots of the enzyme during the catalytic cycle and combine these with quantum-mechanics/molecular-mechanics (QM/MM) metadynamics to unravel the catalytic mechanism of this retaining enzyme at the atomic-electronic level of detail. Our study provides a detailed structural rationale for an ordered bi-bi kinetic mechanism and reveals critical aspects of substrate recognition, which dictate the specificity for acceptor Thr versus Ser residues and enforce a front-face SN i-type reaction in which the substrate N-acetyl sugar substituent coordinates efficient glycosyl transfer.

PubMed: 24954443
DOI: 10.1002/ANIE.201402781

実験手法

X-RAY DIFFRACTION (2.85 Å)