8JE0

A novel amidohydrolase

• PDB DOI: https://doi.org/10.2210/pdb8JE0/pdb

• Classification: HYDROLASE
• Organism(s): Klebsiella sp. PCX
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-05-15 Released: 2024-03-20 
• Deposition Author(s): Ma, D., Feng, R.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.250 
• R-Value Work: 0.214 
• R-Value Observed: 0.216 

Literature

A novel amidohydrolase catalyze the degradation of PAM by Klebsiella sp. PCX

Ma, D., Feng, R.

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.

Macromolecule Content

• Total Structure Weight: 170.79 kDa 
• Atom Count: 10,949 
• Modelled Residue Count: 1,503 
• Deposited Residue Count: 1,548 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Amidase	A, B, C, D	387	Klebsiella sp. PCX	Mutation(s): 0
UniProt
Find proteins for A0A9E8ZAQ2 (Klebsiella sp. PCX) Explore A0A9E8ZAQ2  Go to UniProtKB:  A0A9E8ZAQ2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	E [auth A], F [auth B], H [auth C], I [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
EDO	G [auth C]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.250 
• R-Value Work: 0.214 
• R-Value Observed: 0.216 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 108.05	α = 90
b = 108.05	β = 90
c = 341.353	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-03-20 
Deposition Author(s): Ma, D., Feng, R.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32101371

Revision History  

• Version 1.0: 2024-03-20
  Type: Initial release