5TCV | pdb_00005tcv

ACC oxidase complex with substrate 1-aminocyclopropane-1-carboxylic acid

• PDB DOI: https://doi.org/10.2210/pdb5TCV/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Petunia x hybrida
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-09-15 Released: 2017-09-20 
• Deposition Author(s): Gunawardana, D.M., Yosaatmadja, Y., Leung, I.K., Squire, C.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.291 (Depositor), 0.289 (DCC) 
• R-Value Work: 
  0.232 (Depositor), 0.234 (DCC) 
• R-Value Observed: 
  0.235 (Depositor) 

Starting Model: experimental

Literature

ACC oxidase complex with substrate 1-aminocyclopropane-1-carboxylic acid

Gunawardana, D.M., Arabshahi, J., Yosaatmadja, Y., Reynisson, J., Squire, C.J., Leung, I.K.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 36.39 kDa 
• Atom Count: 2,397 
• Modeled Residue Count: 300 
• Deposited Residue Count: 319 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
1-aminocyclopropane-1-carboxylate oxidase 1	A	319	Petunia x hybrida	Mutation(s): 0  Gene Names: ACO1 EC: 1.14.17.4
UniProt
Find proteins for Q08506 (Petunia hybrida) Explore Q08506  Go to UniProtKB:  Q08506

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1AC	C [auth A]	1-AMINOCYCLOPROPANECARBOXYLIC ACID C4 H7 N O2 PAJPWUMXBYXFCZ-UHFFFAOYSA-N
NI	B [auth A]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.291 (Depositor), 0.289 (DCC) 
• R-Value Work:  0.232 (Depositor), 0.234 (DCC) 
• R-Value Observed: 0.235 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.361	α = 90
b = 107.14	β = 90
c = 108.019	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-09-20 
Deposition Author(s): Gunawardana, D.M., Yosaatmadja, Y., Leung, I.K., Squire, C.J.

Revision History  

• Version 1.0: 2017-09-20
  Type: Initial release
  
• Version 1.1: 2023-10-04
  Changes: Data collection, Database references, Derived calculations, Refinement description