Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 45285.30 
• Atom Count: 3192 
• Residue Count: 390 
• Unique protein chains: 1

1ITV

Dimeric form of the haemopexin domain of MMP9

• DOI: 10.2210/pdb1ITV/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2002-02-11 Released: 2002-09-04 
• Deposition Author(s): Cha, H., Kopetzki, E., Huber, R., Lanzendoerfer, M., Brandstetter, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.275 
• R-Value Work: 0.229 

Literature

Structural basis of the adaptive molecular recognition by MMP9.

Cha, H., Kopetzki, E., Huber, R., Lanzendorfer, M., Brandstetter, H.

(2002) J.Mol.Biol. 320: 1065-1079

• PubMed: 12126625 


• PubMed Abstract: 
  

Matrix metalloproteinase (MMPs) are critical for the degradation of extracellular matrix components and, therefore, need to be regulated tightly. Almost all MMPs share a homologous C-terminal haemopexin-like domain (PEX). Besides its role in macromolecular substrate processing, the PEX domains appear to play a major role in regulating MMP activation, localisation and inhibition. One intriguing property of MMP9 is its competence to bind different proteins, involved in these regulatory processes, with high affinity at an overlapping recognition site on its PEX domain. With the crystal structure of the PEX9 dimer, we present the first example of how PEX domains accomplish these diverse roles. Blade IV of PEX9 mediates the non-covalent and predominantly hydrophobic dimerisation contact. Large shifts of blade III and, in particular, blade IV, accompany the dimerisation, resulting in a remarkably asymmetric homodimeric structure. The asymmetry provides a novel mechanism of adaptive protein recognition, where different proteins (PEX9, PEX1, and TIMP1) can bind with high affinity to PEX9 at an overlapping site. Finally, the structure illustrates how the dimerisation generates new properties on both a physico-chemical and functional level.

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Organizational Affiliation: 

Max-Planck-Institut für Biochemie, Abteilung Strukturforschung, D-82152, Martinsried, Germany.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
MMP9	A, B	195	Homo sapiens	Mutation(s): 0  Gene Names: MMP9 (CLG4B) EC: 3.4.24.35
Find proteins for P14780 (Homo sapiens) Go to Gene View: MMP9 Go to UniProtKB:  P14780

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A, B	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.275 
• R-Value Work: 0.229 
• Space Group: P 4₃

Unit Cell:

Length (Å)	Angle (°)
a = 127.720	α = 90.00
b = 127.720	β = 90.00
c = 31.380	γ = 90.00

Software Package:

Software Name	Purpose
MAIN	model building
MAIN	phasing
DENZO	data reduction
MLPHARE	phasing
CNS	refinement
SCALEPACK	data scaling
SOLOMON	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-02-11 
• Released Date: 2002-09-04 
• Deposition Author(s): Cha, H., Kopetzki, E., Huber, R., Lanzendoerfer, M., Brandstetter, H.

Revision History 

• Version 1.0: 2002-09-04
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance