› 5amm

X-ray diffraction
2.09Å resolution

Structure of Leishmania major peroxidase D211N mutant

Released:
DOI: 10.2210/pdb5amm/pdb
PDB entry 5amm coloured by chain, front view.
PDB entry 5amm coloured by chain, side view.
PDB entry 5amm coloured by chain, top view.
Source organism: Leishmania major
Primary publication:
"Bind and Crawl" Association Mechanism of Leishmania major Peroxidase and Cytochrome c Revealed by Brownian and Molecular Dynamics Simulations.
Fields JB, Hollingsworth SA, Chreifi G, Heyden M, Arce AP, Magaña-Garcia HI, Poulos TL, Tobias DJ
Biochemistry 54 7272-82 (2015)
PMID: 26598276

Function and Biology Details

Reaction catalysed: 
2 ferrocytochrome c + H(2)O(2) = 2 ferricytochrome c + 2 H(2)O
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175668 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cytochrome c peroxidase, mitochondrial Chains: A, B
Molecule details ›
Chains: A, B
Length: 270 amino acids
Theoretical weight: 30.59 KDa
Source organism: Leishmania major
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q4Q3K2 (Residues: 35-303; Coverage: 89%)
Gene names: APX, LMJF_34_0070
Sequence domains: Peroxidase
Structure domains:

Ligands and Environments


Cofactor: Ligand HEM 2 x HEM
2 bound ligands:
Ligand K 2 x K
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 12.3.1
Spacegroup: P212121
Unit cell:
a: 46.249Å b: 78.31Å c: 160.977Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.187 0.184 0.245
Expression system: Escherichia coli BL21(DE3)

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Citations

2 review citations

Molecular Dynamics Simulation for All.
Hollingsworth et al. (2018)
1 more