2E2D image
Deposition Date 2006-11-11
Release Date 2007-03-13
Last Version Date 2024-11-06
Entry Detail
PDB ID:
2E2D
Title:
Flexibility and variability of TIMP binding: X-ray structure of the complex between collagenase-3/MMP-13 and TIMP-2
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Bos taurus (Taxon ID: 9913)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.00 Å
R-Value Free:
0.23
R-Value Work:
0.19
R-Value Observed:
0.20
Space Group:
P 65
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Matrix metallopeptidase 13
Gene (Uniprot):MMP13
Chain IDs:A
Chain Length:165
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Metalloproteinase inhibitor 2
Gene (Uniprot):TIMP2
Chain IDs:B (auth: C)
Chain Length:180
Number of Molecules:1
Biological Source:Bos taurus
Primary Citation
Flexibility and Variability of TIMP Binding: X-ray Structure of the Complex Between Collagenase-3/MMP-13 and TIMP-2
J.Mol.Biol. 366 1222 1231 (2007)
PMID: 17196980 DOI: 10.1016/j.jmb.2006.11.072

Abstact

The excessive activity of matrix metalloproteinases (MMPs) contributes to pathological processes such as arthritis, tumor growth and metastasis if not balanced by the tissue inhibitors of metalloproteinases (TIMPs). In arthritis, the destruction of fibrillar (type II) collagen is one of the hallmarks, with MMP-1 (collagenase-1) and MMP-13 (collagenase-3) being identified as key players in arthritic cartilage. MMP-13, furthermore, has been found in highly metastatic tumors. We have solved the 2.0 A crystal structure of the complex between the catalytic domain of human MMP-13 (cdMMP-13) and bovine TIMP-2. The overall structure resembles our previously determined MT1-MMP/TIMP-2 complex, in that the wedge-shaped TIMP-2 inserts with its edge into the entire MMP-13 active site cleft. However, the inhibitor is, according to a relative rotation of approximately 20 degrees, oriented differently relative to the proteinase. Upon TIMP binding, the catalytic zinc, the zinc-ligating side chains, the enclosing MMP loop and the S1' wall-forming segment move significantly and in concert relative to the rest of the cognate MMP, and the active site cleft constricts slightly, probably allowing a more favourable interaction between the Cys1(TIMP) alpha-amino group of the inhibitor and the catalytic zinc ion of the enzyme. Thus, this structure supports the view that the central N-terminal TIMP segment essentially defines the relative positioning of the TIMP, while the flanking edge loops determine the relative orientation, depending on the individual target MMP.

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