1VJU | pdb_00001vju

Coproporphyrinogen III oxidase from Leishmania major

• PDB DOI: https://doi.org/10.2210/pdb1VJU/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Leishmania major
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2004-03-29 Released: 2004-04-13 
• Deposition Author(s): Structural Genomics of Pathogenic Protozoa Consortium (SGPP)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 
  0.180 (Depositor), 0.198 (DCC) 
• R-Value Work: 
  0.151 (Depositor), 0.171 (DCC) 

Literature

Coproporphyrinogen III oxidase from Leishmania major

Structural Genomics of Pathogenic Protozoa Consortium

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 71.45 kDa 
• Atom Count: 5,338 
• Modeled Residue Count: 586 
• Deposited Residue Count: 618 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Coproporphyrinogen III oxidase	A, B	309	Leishmania major	Mutation(s): 0  EC: 1.3.3.3
UniProt
Find proteins for P84155 (Leishmania major) Explore P84155  Go to UniProtKB:  P84155

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free:  0.180 (Depositor), 0.198 (DCC) 
• R-Value Work:  0.151 (Depositor), 0.171 (DCC) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.649	α = 86.456
b = 53.734	β = 77.126
c = 66.627	γ = 61.501

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
SHELX	phasing
RESOLVE	phasing
REFMAC	refinement
SHELXD	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-04-13 
Deposition Author(s): Structural Genomics of Pathogenic Protozoa Consortium (SGPP)

Revision History  

• Version 1.0: 2004-04-13
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description
• Version 1.4: 2018-01-31
  Changes: Database references
• Version 1.5: 2023-12-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.6: 2024-11-13
  Changes: Structure summary