3ATJ | pdb_00003atj

HEME LIGAND MUTANT OF RECOMBINANT HORSERADISH PEROXIDASE IN COMPLEX WITH BENZHYDROXAMIC ACID

• PDB DOI: https://doi.org/10.2210/pdb3ATJ/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Armoracia rusticana
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 1998-12-16 Released: 1999-04-28 
• Deposition Author(s): Meno, K., White, C.G., Smith, A.T., Gajhede, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.203 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.170 (DCC) 

Starting Model: experimental

Literature

Structural and Catalytical Implications of a F221M Mutation in the Proximal Pocket of Horseradish Peroxidase C (HRP C)

Meno, K., White, C.G., Smith, A.T., Gajhede, M.

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.

Macromolecule Content 

• Total Structure Weight: 69.79 kDa 
• Atom Count: 5,224 
• Modeled Residue Count: 616 
• Deposited Residue Count: 618 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (HORSERADISH PEROXIDASE C1A)	A, B	309	Armoracia rusticana	Mutation(s): 1  EC: 1.11.1.7
UniProt
Find proteins for P00433 (Armoracia rusticana) Explore P00433  Go to UniProtKB:  P00433

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	E [auth A], I [auth B]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
BHO	F [auth A], J [auth B]	BENZHYDROXAMIC ACID C7 H7 N O2 VDEUYMSGMPQMIK-UHFFFAOYSA-N
CA	C [auth A], D [auth A], G [auth B], H [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.203 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.170 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.105	α = 90
b = 62.283	β = 104.31
c = 78.16	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-04-28 
Deposition Author(s): Meno, K., White, C.G., Smith, A.T., Gajhede, M.

Revision History  

• Version 1.0: 1999-04-28
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-03-14
  Changes: Database references
• Version 1.4: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.5: 2024-11-13
  Changes: Structure summary