8ZP6 | pdb_00008zp6

Crystal structure of Epoxide hydrolase MdEH (Mycobacterium dioxanotrophicus)

• PDB DOI: https://doi.org/10.2210/pdb8ZP6/pdb

• Classification: HYDROLASE
• Organism(s): Mycobacterium dioxanotrophicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-05-29 Released: 2025-06-04 
• Deposition Author(s): Zhou, Y., Lan, D.M., Wang, Y.H.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.258 (Depositor), 0.258 (DCC) 
• R-Value Work: 
  0.240 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.240 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of Epoxide hydrolase MdEH (Mycobacterium dioxanotrophicus)

Zhou, Y., Lan, D.M., Wang, Y.H.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 33.83 kDa 
• Atom Count: 2,749 
• Modeled Residue Count: 291 
• Deposited Residue Count: 293 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AB hydrolase-1 domain-containing protein	A	293	Mycobacterium dioxanotrophicus	Mutation(s): 0  Gene Names: BTO20_37290
UniProt
Find proteins for A0A1Y0CH10 (Mycobacterium dioxanotrophicus) Explore A0A1Y0CH10  Go to UniProtKB:  A0A1Y0CH10

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.258 (Depositor), 0.258 (DCC) 
• R-Value Work:  0.240 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.240 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 179.29	α = 90
b = 179.29	β = 90
c = 151.35	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-04 
Deposition Author(s): Zhou, Y., Lan, D.M., Wang, Y.H.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2025-06-04
  Type: Initial release