2HZH | pdb_00002hzh

Crystal structure of laccase from Coriolus zonatus at 2.6 A resolution

• PDB DOI: https://doi.org/10.2210/pdb2HZH/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Trametes ochracea
• Mutation(s): No 


• Deposited: 2006-08-09 Released: 2007-08-14 
• Deposition Author(s): Lyashenko, A.V., Mikhailov, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.238 (Depositor), 0.235 (DCC) 
• R-Value Work: 
  0.211 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.213 (Depositor) 

Literature

Crystal structure of laccase from Coriolus zonatus at 2.6 A resolution

Lyashenko, A.V., Zhukhlistova, N.E., Gabdoulkhakov, A.G., Zhukova, Y.N., Voelter, W., Zaitsev, V.N., Bento, I., Stepanova, E.V., Kachalova, G.S., Koroleva, O.V., Betzel, C., Lindley, P.F., Mikhailov, A.M., Tishkov, V.I., Morgunova, E.Y.

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: 54.12 kDa 
• Atom Count: 3,924 
• Modeled Residue Count: 499 
• Deposited Residue Count: 499 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
laccase	A	499	Trametes ochracea	Mutation(s): 0  EC: 1.10.3.2
UniProt
Find proteins for Q8TG94 (Trametes pubescens) Explore Q8TG94  Go to UniProtKB:  Q8TG94

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NDG	B [auth A], C [auth A]	2-acetamido-2-deoxy-alpha-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-PVFLNQBWSA-N
NAG	E [auth A], F [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
MAN	D [auth A]	alpha-D-mannopyranose C6 H12 O6 WQZGKKKJIJFFOK-PQMKYFCFSA-N
CU	G [auth A], H [auth A], I [auth A], J [auth A]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.238 (Depositor), 0.235 (DCC) 
• R-Value Work:  0.211 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.213 (Depositor) 

Space Group: P 3 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 168.93	α = 90
b = 168.93	β = 90
c = 69.35	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MAR345	data collection
XDS	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-08-14 
Deposition Author(s): Lyashenko, A.V., Mikhailov, A.M.

Revision History  

• Version 1.0: 2007-08-14
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2016-02-17
  Changes: Derived calculations
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2024-10-16
  Changes: Data collection, Database references, Structure summary