9C9E | pdb_00009c9e

Crystal structure of fluoroacetate dehalogenase 4A from Delftia acidovorans strain D4B

• PDB DOI: https://doi.org/10.2210/pdb9C9E/pdb

• Classification: TRANSFERASE
• Organism(s): Delftia acidovorans
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-06-13 Released: 2025-08-27 
• Deposition Author(s): Caputo, A.T., Hu, M., Scott, C.
• Funding Organization(s): Commonwealth Scientific and Industrial Research Organisation (CSIRO)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.58 Å
• R-Value Free: 
  0.249 (Depositor), 0.237 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.217 (DCC) 
• R-Value Observed: 
  0.227 (Depositor) 

Starting Model: in silico

Literature

Crystal structures of two fluoroacetate dehalogenases

Hu, M., Caputo, A.T., Scott, C.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 26.46 kDa 
• Atom Count: 1,746 
• Modeled Residue Count: 211 
• Deposited Residue Count: 244 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fluoroacetate dehalogenase 4A	A	244	Delftia acidovorans	Mutation(s): 0
UniProt
Find proteins for A9BRP8 (Delftia acidovorans (strain DSM 14801 / SPH-1)) Explore A9BRP8  Go to UniProtKB:  A9BRP8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.58 Å
• R-Value Free:  0.249 (Depositor), 0.237 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.217 (DCC) 
• R-Value Observed: 0.227 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.225	α = 90
b = 68.496	β = 90
c = 69.909	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
autoPROC	data processing
Aimless	data scaling
PHASER	phasing
XDS	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-08-27 
Deposition Author(s): Caputo, A.T., Hu, M., Scott, C.

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Funding Organization	Location	Grant Number
Commonwealth Scientific and Industrial Research Organisation (CSIRO)	Australia	--

Revision History  

• Version 1.0: 2025-08-27
  Type: Initial release