2YZC

Crystal structure of uricase from Arthrobacter globiformis in complex with allantoate

• PDB DOI: https://doi.org/10.2210/pdb2YZC/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Arthrobacter globiformis
• Mutation(s): No 


• Deposited: 2007-05-05 Released: 2008-05-06 
• Deposition Author(s): Juan, E.C.M., Hossain, M.T., Hoque, M.M., Suzuki, K., Sekiguchi, T., Takenaka, A.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.88 Å
• R-Value Free: 0.195 
• R-Value Work: 0.159 
• R-Value Observed: 0.161 

Starting Model: experimental

Literature

Trapping of the uric acid substrate in the crystal structure of urate oxidase from Arthrobacter globiformis

Juan, E.C.M., Hossain, M.T., Hoque, M.M., Yamamoto, T., Imamura, S., Suzuki, K., Sekiguchi, T., Takenaka, A.

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)

Biological Assembly 2  

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

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

Macromolecule Content

• Total Structure Weight: 272.61 kDa 
• Atom Count: 20,334 
• Modelled Residue Count: 2,296 
• Deposited Residue Count: 2,416 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uricase	A, B, C, D, E, F, G, H	302	Arthrobacter globiformis	Mutation(s): 0  EC: 1.7.3.3
UniProt
Find proteins for D0VWQ1 (Arthrobacter globiformis) Explore D0VWQ1  Go to UniProtKB:  D0VWQ1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1AL	I [auth A], J [auth B], K [auth B], L [auth D], M [auth E], N [auth F], O [auth G], P [auth H]	ALLANTOATE ION C4 H7 N4 O4 NUCLJNSWZCHRKL-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.88 Å
• R-Value Free: 0.195 
• R-Value Work: 0.159 
• R-Value Observed: 0.161 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.498	α = 90
b = 122.942	β = 90
c = 284.784	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-05-06 
Deposition Author(s): Juan, E.C.M., Hossain, M.T., Hoque, M.M., Suzuki, K., Sekiguchi, T., Takenaka, A.

Revision History  

• Version 1.0: 2008-05-06
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description