1C3J

T4 PHAGE BETA-GLUCOSYLTRANSFERASE: SUBSTRATE BINDING AND PROPOSED CATALYTIC MECHANISM

1C3J の概要

• エントリーDOI: 10.2210/pdb1c3j/pdb
• 関連するPDBエントリー: 1BGU 1QKJ
• 分子名称: BETA-GLUCOSYLTRANSFERASE, URIDINE-5'-DIPHOSPHATE (3 entities in total)
• 機能のキーワード: glycosyltransferase, transferase
• 由来する生物種: Enterobacteria phage T4
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 41124.04

構造登録者

Morera, S.,Imberty, A.,Aschke-Sonnenborn, U.,Ruger, W.,Freemont, P.S. (登録日: 1999-07-28, 公開日: 1999-08-09, 最終更新日: 2024-02-07)

主引用文献

Morera, S.,Imberty, A.,Aschke-Sonnenborn, U.,Ruger, W.,Freemont, P.S.
T4 phage beta-glucosyltransferase: substrate binding and proposed catalytic mechanism.
J.Mol.Biol., 292:717-730, 1999

PubMed Abstract: beta-Glucosyltransferase (BGT) is a DNA-modifying enzyme encoded by bacteriophage T4 which catalyses the transfer of glucose (Glc) from uridine diphosphoglucose (UDP-Glc) to 5-hydroxymethylcytosine (5-HMC) in double-stranded DNA. The glucosylation of T4 phage DNA is part of a phage DNA protection system aimed at host nucleases. We previously reported the first three-dimensional structure of BGT determined from crystals grown in ammonium sulphate containing UDP-Glc. In this previous structure, we did not observe electron density for the Glc moiety of UDP-Glc nor for two large surface loop regions (residues 68-76 and 109-122). Here we report two further BGT co-crystal structures, in the presence of UDP product (form I) and donor substrate UDP-Glc (form II), respectively. Form I crystals are grown in ammonium sulphate and the structure has been determined to 1.88 A resolution (R -factor 19.1 %). Form II crystals are grown in polyethyleneglycol 4000 and the structure has been solved to 2.3 A resolution (R -factor 19.8 %). The form I structure is isomorphous to our previous BGT UDP-Glc structure. The form II structure, however, has allowed us to model the two missing surface loop regions and thus provides the first complete structural description of BGT. In this low-salt crystal form, we see no electron density for the Glc moiety from UDP-Glc similar to previous observations. Biochemical data however, shows that BGT can cleave UDP-Glc in the absence of DNA acceptor, which probably accounts for the absence of Glc in our UDP-Glc substrate structures. The complete BGT structure now provides a basis for detailed modelling of a BGT HMC-DNA ternary complex. By using the structural similarity between the catalytic core of glycogen phosphorylase (GP) and BGT, we have modelled the position of the Glc moiety in UDP-Glc. From these two models, we propose a catalytic mechanism for BGT and identify residues involved in both DNA binding and in stabilizing a "flipped-out" 5-HMC nucleotide.

PubMed: 10497034
DOI: 10.1006/jmbi.1999.3094

実験手法

X-RAY DIFFRACTION (1.88 Å)