Structure of sucrose phosphorylase from Bifidobacterium adolescentis bound to glycosylated resveratrol

Experimental Data Snapshot

  • Resolution: 2.35 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.260 

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Switching enzyme specificity from phosphate to resveratrol glucosylation.

Kraus, M.Grimm, C.Seibel, J.

(2017) Chem Commun (Camb) 53: 12181-12184

  • DOI: https://doi.org/10.1039/c7cc05993k
  • Primary Citation of Related Structures:  
    5M9X, 5MAN

  • PubMed Abstract: 

    Here we present a point mutation-triggered domain shift which switches the acceptor preference of a sucrose phosphorylase from phosphate to a variety of large polyphenolic compounds including resveratrol and quercetin, enabling their efficient glucosylation. The variant possesses a high affinity for aromatic substrates due to newly introduced π-π- and hydrophobic interactions in the altered active site. The domain shift brings about a substantially enlarged and multifunctional active site for polyphenol glucosylation and rare disaccharide production. The crystal structure of the variant with its product resveratrol-3-α-d-glucoside allows the prediction of the substrate scope and regioselectivity of the aromatic compounds' glucosylation sites.

  • Organizational Affiliation

    Department of Organic Chemistry, Universität Würzburg, Am Hubland, 97074 Würzburg, Germany. seibel@chemie.uni-wuerzburg.de.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Sucrose phosphorylaseA [auth B]504Bifidobacterium adolescentisMutation(s): 0 
Gene Names: sucP
Find proteins for A0ZZH6 (Bifidobacterium adolescentis (strain ATCC 15703 / DSM 20083 / NCTC 11814 / E194a))
Explore A0ZZH6 
Go to UniProtKB:  A0ZZH6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0ZZH6
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 7KP

Download Ideal Coordinates CCD File 
(2~{R},3~{S},4~{S},5~{R},6~{R})-2-(hydroxymethyl)-6-[3-[(~{E})-2-(4-hydroxyphenyl)ethenyl]-5-oxidanyl-phenoxy]oxane-3,4 ,5-triol
C20 H22 O8
Experimental Data & Validation

Experimental Data

  • Resolution: 2.35 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.260 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 83.103α = 90
b = 83.103β = 90
c = 157.209γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-12-20
    Type: Initial release
  • Version 1.1: 2019-10-16
    Changes: Data collection
  • Version 1.2: 2024-05-08
    Changes: Data collection, Database references, Derived calculations, Structure summary