› 3dpf

X-ray diffraction
2.1Å resolution

Crystal structure of the complex between MMP-8 and a non-zinc chelating inhibitor

Released:
DOI: 10.2210/pdb3dpf/pdb
PDB entry 3dpf coloured by chain, front view.
PDB entry 3dpf coloured by chain, side view.
PDB entry 3dpf coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Extra binding region induced by non-zinc chelating inhibitors into the S1' subsite of matrix metalloproteinase 8 (MMP-8).
Pochetti G, Montanari R, Gege C, Chevrier C, Taveras AG, Mazza F
J Med Chem 52 1040-9 (2009)
PMID: 19173605

Function and Biology Details

Reaction catalysed: 
Cleavage of interstitial collagens in the triple helical domain. Unlike EC 3.4.24.7, this enzyme cleaves type III collagen more slowly than type I.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-149831 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Neutrophil collagenase Chains: A, B
Molecule details ›
Chains: A, B
Length: 163 amino acids
Theoretical weight: 18.11 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P22894 (Residues: 100-262; Coverage: 37%)
Gene names: CLG1, MMP8
Sequence domains: Matrixin
Structure domains: Collagenase (Catalytic Domain)

Ligands and Environments

4 bound ligands:
Ligand CA 4 x CA
Ligand ZN 4 x ZN
Ligand AXB 2 x AXB
Ligand HAE 1 x HAE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P212121
Unit cell:
a: 68.3Å b: 69.21Å c: 81.23Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.238 0.238 0.27
Expression system: Escherichia coli

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Citations

6 review citations

Matrix metalloproteinase inhibitors: a critical appraisal of design principles and proposed therapeutic utility.
Dormán et al. (2010)
5 more

15 mentions without citation

3D Printed Formwork for Concrete: State-of-the-Art, Opportunities, Challenges, and Applications.
Jipa et al. (2022)
14 more