1CXV

STRUCTURE OF RECOMBINANT MOUSE COLLAGENASE-3 (MMP-13)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of recombinant mouse collagenase-3 (MMP-13).

Botos, I.Meyer, E.Swanson, S.M.Lemaitre, V.Eeckhout, Y.Meyer, E.F.

(1999) J.Mol.Biol. 292: 837-844

  • DOI: 10.1006/jmbi.1999.3068

  • PubMed Abstract: 
  • The matrix metalloproteinases are crucial in the physiological and pathological degradation of the mammalian extracellular matrix, including breast tumours, and osteoarthritic cartilage. These enzymes are classified according to their matrix substrat ...

    The matrix metalloproteinases are crucial in the physiological and pathological degradation of the mammalian extracellular matrix, including breast tumours, and osteoarthritic cartilage. These enzymes are classified according to their matrix substrate specificity. Collagenase-3 (MMP-13) is a member of this family and preferentially cleaves type II collagen, cartilage, fibronectin and aggrecan. Collagenase-3 is normally expressed in hypertrophic chondrocytes, periosteal cells, and osteoblasts during bone development. The structure of the catalytic domain of recombinant mouse collagenase-3, complexed to the hydroxamate inhibitor (RS-113456), is reported at 2.0 A resolution. Molecular replacement and weak phasing information from a single derivative determined the structure. Neither molecular replacement nor derivative methods had a sufficient radius of convergence to yield a refinable structure. The structure illuminates the atomic zinc ion interactions with functional groups in the active site, emphasizing zinc ligation and the very voluminous hydrophobic P1' group for the inhibitor potency. The structure provides insight into the specificity of this enzyme, facilitating design of specific inhibitors to target various diseases.


    Related Citations: 
    • Crystal Structures of Mmp-1 and-13 Reveal the Structural Basis for Selectivity of Collagenase Inhibitors
      Lovejoy, B.,Welch, A.R.,Carr, S.,Luong, C.,Broka, C.,Hendriks, T.,Campbell, J.A.,Walker, K.A.M.,Martin, R.,Van, W.H.,Browner, M.F.
      (1999) Nat.Struct.Mol.Biol. 6: 217
    • The Recombinant Catalytic Domain of Mouse Collagenase-3 Depolymerizes Type I Collagen by Cleaving its Aminotelopeptides
      Lemaitre, V.,Jungbluth, A.,Eeckhout, Y.
      (1997) Biochem.Biophys.Res.Commun. 230: 202


    Organizational Affiliation

    Department of Biochemistry and Biophysics, Texas A&M University, TX, 77843-2128, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN (COLLAGENASE-3)
A, B
164Mus musculusGene Names: Mmp13
EC: 3.4.24.-
Find proteins for P33435 (Mus musculus)
Go to UniProtKB:  P33435
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CA
Query on CA

Download SDF File 
Download CCD File 
A, B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
CBP
Query on CBP

Download SDF File 
Download CCD File 
A, B
2-{4-[4-(4-CHLORO-PHENOXY)-BENZENESULFONYL]-TETRAHYDRO-PYRAN-4-YL}-N-HYDROXY-ACETAMIDE
C19 H20 Cl N O6 S
QOPFTBAEAJQKSY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.196 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 56.360α = 90.00
b = 48.460β = 108.15
c = 74.940γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-08-30
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance