3VLI | pdb_00003vli

Crystal Structure Analysis of the Cyanide Arg409Leu Variant KatG from HALOARCULA MARISMORTUI

• PDB DOI: https://doi.org/10.2210/pdb3VLI/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Haloarcula marismortui ATCC 43049
• Expression System: Haloferax volcanii
• Mutation(s): Yes 


• Deposited: 2011-12-01 Released: 2012-12-05 
• Deposition Author(s): Sato, T., Higuchi, W., Yoshimatsu, K., Fujiwara, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.234 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.218 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.218 (Depositor) 

Literature

Crystal Structures and Peroxidatic Function of Cyanide Arg409Leu Variant and its Complexes with o-Dianisidine in KatG from HALOARCULA MARISMORTUI

Sato, T., Higuchi, W., Yoshimatsu, K., Fujiwara, T.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 165.78 kDa 
• Atom Count: 11,870 
• Modeled Residue Count: 1,425 
• Deposited Residue Count: 1,474 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Catalase-peroxidase 2	A, B	737	Haloarcula marismortui ATCC 43049	Mutation(s): 1  Gene Names: katG2 EC: 1.11.1.21
UniProt
Find proteins for O59651 (Haloarcula marismortui (strain ATCC 43049 / DSM 3752 / JCM 8966 / VKM B-1809)) Explore O59651  Go to UniProtKB:  O59651

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	C [auth A], E [auth B]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
CYN	D [auth A], F [auth B]	CYANIDE ION C N XFXPMWWXUTWYJX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.234 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.218 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.218 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 315.883	α = 90
b = 81.426	β = 99.72
c = 75.576	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-12-05 
Deposition Author(s): Sato, T., Higuchi, W., Yoshimatsu, K., Fujiwara, T.

Revision History  

• Version 1.0: 2012-12-05
  Type: Initial release
  
• Version 1.1: 2024-03-20
  Changes: Data collection, Database references, Derived calculations