› 4mmm

X-ray diffraction
1.47Å resolution

Human Pdrx5 complex with a ligand BP7

Released:
DOI: 10.2210/pdb4mmm/pdb
PDB entry 4mmm coloured by chain, front view.
PDB entry 4mmm coloured by chain, side view.
PDB entry 4mmm coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Comparing binding modes of analogous fragments using NMR in fragment-based drug design: application to PRDX5.
Aguirre C, ten Brink T, Guichou JF, Cala O, Krimm I
PLoS One 9 e102300 (2014)
PMID: 25025339

Function and Biology Details

Reaction catalysed: 
Thioredoxin + ROOH = thioredoxin disulfide + H(2)O + ROH
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-151615 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Peroxiredoxin-5, mitochondrial Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 168 amino acids
Theoretical weight: 17.84 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P30044 (Residues: 54-214; Coverage: 75%)
Gene names: ACR1, PRDX5, SBBI10
Sequence domains: Redoxin
Structure domains: Glutaredoxin

Ligands and Environments

1 bound ligand:
Ligand BP7 2 x BP7
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P21
Unit cell:
a: 66.467Å b: 101.228Å c: 58.754Å
α: 90° β: 90.09° γ: 90°
R-values:
R R work R free
0.164 0.162 0.192
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Concepts and Core Principles of Fragment-Based Drug Design.
Kirsch et al. (2019)
1 more

3 mentions without citation

Peroxiredoxins wear many hats: Factors that fashion their peroxide sensing personalities.
Bolduc et al. (2021)
2 more