7X7L

Crystal structure of ZmHPPD-Y13161 complex

• PDB DOI: https://doi.org/10.2210/pdb7X7L/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Zea mays
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): Yes 


• Deposited: 2022-03-09 Released: 2022-06-01 
• Deposition Author(s): Lin, H.-Y., Dong, J., Yang, G.-F.
• Funding Organization(s): National Science Foundation (NSF, China)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free: 0.207 
• R-Value Work: 0.173 
• R-Value Observed: 0.175 

Literature

Structural insights of 4-Hydrophenylpyruvate dioxygenase inhibition by structurally diverse small molecules

Dong, J., Dong, J., Yu, X.H., Yan, Y.C., Nan, J.X., He, B., Ye, B.Q., Yang, W.C., Lin, H.Y., Yang, G.F.

(2022) Adv Agrochem 

• DOI: https://doi.org/10.1016/j.aac.2022.10.002

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 189.84 kDa 
• Atom Count: 12,413 
• Modelled Residue Count: 1,470 
• Deposited Residue Count: 1,776 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-hydroxyphenylpyruvate dioxygenase	A, B, C, D	444	Zea mays	Mutation(s): 1  Gene Names: ZEAMMB73_Zm00001d015356
UniProt
Find proteins for A0A1D6H1G0 (Zea mays) Explore A0A1D6H1G0  Go to UniProtKB:  A0A1D6H1G0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
94L	F [auth A], H [auth B], J [auth C], L [auth D]	3-(2,6-dimethylphenyl)-1-methyl-6-(2-oxidanyl-6-oxidanylidene-cyclohexen-1-yl)carbonyl-quinazoline-2,4-dione C24 H22 N2 O5 IFHRYUOSJUERAZ-UHFFFAOYSA-N
CO	E [auth A], G [auth B], I [auth C], K [auth D]	COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.89 Å
• R-Value Free: 0.207 
• R-Value Work: 0.173 
• R-Value Observed: 0.175 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 53.952	α = 89.78
b = 83.428	β = 97.46
c = 85.61	γ = 107.64

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: 2022-06-01 
Deposition Author(s): Lin, H.-Y., Dong, J., Yang, G.-F.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	--

Revision History  

• Version 1.0: 2022-06-01
  Type: Initial release
  
• Version 1.1: 2022-12-14
  Changes: Database references
• Version 1.2: 2023-11-29
  Changes: Data collection, Refinement description