5NON

Structure of truncated Norcoclaurine Synthase from Thalictrum flavum with product mimic


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural Evidence for the Dopamine-First Mechanism of Norcoclaurine Synthase.

Lichman, B.R.Sula, A.Pesnot, T.Hailes, H.C.Ward, J.M.Keep, N.H.

(2017) Biochemistry 56: 5274-5277

  • DOI: 10.1021/acs.biochem.7b00769
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Norcoclaurine synthase (NCS) is a Pictet-Spenglerase that catalyzes the first key step in plant benzylisoquinoline alkaloid metabolism, a compound family that includes bioactive natural products such as morphine. The enzyme has also shown great poten ...

    Norcoclaurine synthase (NCS) is a Pictet-Spenglerase that catalyzes the first key step in plant benzylisoquinoline alkaloid metabolism, a compound family that includes bioactive natural products such as morphine. The enzyme has also shown great potential as a biocatalyst for the formation of chiral isoquinolines. Here we present new high-resolution X-ray crystallography data describing Thalictrum flavum NCS bound to a mechanism-inspired ligand. The structure supports two key features of the NCS "dopamine-first" mechanism: the binding of dopamine catechol to Lys-122 and the position of the carbonyl substrate binding site at the active site entrance. The catalytically vital residue Glu-110 occupies a previously unobserved ligand-bound conformation that may be catalytically significant. The potential roles of inhibitory binding and alternative amino acid conformations in the mechanism have also been revealed. This work significantly advances our understanding of the NCS mechanism and will aid future efforts to engineer the substrate scope and catalytic properties of this useful biocatalyst.


    Organizational Affiliation

    Department of Biochemical Engineering, University College London , Gower Street, London WC1E 6BT, U.K.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
S-norcoclaurine synthase
A, B, C
165Thalictrum flavum subsp. glaucumMutation(s): 0 
EC: 4.2.1.78
Find proteins for Q67A25 (Thalictrum flavum subsp. glaucum)
Go to UniProtKB:  Q67A25
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
93H
Query on 93H

Download SDF File 
Download CCD File 
A, B, C
4-[2-[2-(4-methoxyphenyl)ethylamino]ethyl]benzene-1,2-diol
C17 H21 N O3
YUWZXUMQIZRXEN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.187 
  • Space Group: P 2 21 21
Unit Cell:
Length (Å)Angle (°)
a = 38.310α = 90.00
b = 110.218β = 90.00
c = 136.902γ = 90.00
Software Package:
Software NamePurpose
DIALSdata reduction
REFMACphasing
REFMACrefinement
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-09-27
    Type: Initial release
  • Version 1.1: 2017-10-18
    Type: Database references