8HO2 | pdb_00008ho2

crystal structure of Norcoclaurine synthase from Chinese lotus (Nelumbo nucicera)

• PDB DOI: https://doi.org/10.2210/pdb8HO2/pdb

• Classification: PLANT PROTEIN
• Organism(s): Nelumbo nucifera
• Expression System: Eschenbachia
• Mutation(s): No 


• Deposited: 2022-12-09 Released: 2023-12-06 
• Deposition Author(s): Liao, L.J., Zhao, Y.C.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 
  0.179 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.157 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.158 (Depositor) 

Starting Model: experimental

Literature

Discovery, Structure, and Mechanism of the (R, S)-Norcoclaurine Synthase for the Chiral Synthesis of Benzylisoquinoline Alkaloids

Zhang, L., Zhang, S., Liao, L., Tang, H., Wang, W., Yin, F., Han, L., Zhu, K., Liu, Y., Xu, D., Wang, X., Qin, M., Xiao, Y., Sheng, X., Zhao, Y.

(2023) ACS Catal 13: 15164-15174

• DOI: https://doi.org/10.1021/acscatal.3c03296

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 36.9 kDa 
• Atom Count: 2,846 
• Modelled Residue Count: 313 
• Deposited Residue Count: 324 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
S-norcoclaurine synthase	A, B	162	Nelumbo nucifera	Mutation(s): 0  Gene Names: LOC104590414, HUJ06_019302 EC: 4.2.1.78
UniProt
Find proteins for A0A191T7N6 (Nelumbo nucifera) Explore A0A191T7N6  Go to UniProtKB:  A0A191T7N6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free:  0.179 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.157 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.158 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.262	α = 90
b = 58.104	β = 90
c = 114.139	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-12-06 
Deposition Author(s): Liao, L.J., Zhao, Y.C.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	81703637
National Natural Science Foundation of China (NSFC)	China	31970596

Revision History  

• Version 1.0: 2023-12-06
  Type: Initial release
  
• Version 1.1: 2024-12-18
  Changes: Database references, Structure summary