1UEA

MMP-3/TIMP-1 COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Work: 0.197 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Mechanism of inhibition of the human matrix metalloproteinase stromelysin-1 by TIMP-1.

Gomis-Ruth, F.X.Maskos, K.Betz, M.Bergner, A.Huber, R.Suzuki, K.Yoshida, N.Nagase, H.Brew, K.Bourenkov, G.P.Bartunik, H.Bode, W.

(1997) Nature 389: 77-81

  • DOI: 10.1038/37995

  • PubMed Abstract: 
  • Matrix metalloproteinases (MMPs) are zinc endopeptidases that are required for the degradation of extracellular matrix components during normal embryo development, morphogenesis and tissue remodelling. Their proteolytic activities are precisely regul ...

    Matrix metalloproteinases (MMPs) are zinc endopeptidases that are required for the degradation of extracellular matrix components during normal embryo development, morphogenesis and tissue remodelling. Their proteolytic activities are precisely regulated by endogenous tissue inhibitors of metalloproteinases (TIMPs). Disruption of this balance results in diseases such as arthritis, atherosclerosis, tumour growth and metastasis. Here we report the crystal structure of an MMP-TIMP complex formed between the catalytic domain of human stromelysin-1 (MMP-3) and human TIMP-1. TIMP-1, a 184-residue protein, has the shape of an elongated, contiguous wedge. With its long edge, consisting of five different chain regions, it occupies the entire length of the active-site cleft of MMP-3. The central disulphide-linked segments Cys 1-Thr 2-Cys 3-Val 4 and Ser 68-Val 69 bind to either side of the catalytic zinc. Cys 1 bidentally coordinates this zinc, and the Thr-2 side chain extends into the large specificity pocket of MMP-3. This unusual architecture of the interface between MMP-3 and TIMP-1 suggests new possibilities for designing TIMP variants and synthetic MMP inhibitors with potential therapeutic applications.


    Related Citations: 
    • Folding and Characterization of the Amino-Terminal Domain of Human Tissue Inhibitor of Metalloproteinases-1 (Timp-1) Expressed at High Yield in E. Coli
      Huang, W.,Suzuki, K.,Nagase, H.,Arumugam, S.,Van Doren, S.R.,Brew, K.
      (1996) FEBS Lett. 384: 155
    • Stromelysin-1: Three-Dimensional Structure of the Inhibited Catalytic Domain and of the C-Truncated Proenzyme
      Becker, J.W.,Marcy, A.I.,Rokosz, L.L.,Axel, M.G.,Burbaum, J.J.,Fitzgerald, P.M.,Cameron, P.M.,Esser, C.K.,Hagmann, W.K.,Hermes, J.D.,Springer, J.P.
      (1995) Protein Sci. 4: 1966


    Organizational Affiliation

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




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MATRIX METALLOPROTEINASE-3
A, C
173Homo sapiensMutation(s): 2 
Gene Names: MMP3 (STMY1)
EC: 3.4.24.17
Find proteins for P08254 (Homo sapiens)
Go to Gene View: MMP3
Go to UniProtKB:  P08254
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
TISSUE INHIBITOR OF METALLOPROTEINASE-1
B, D
184Homo sapiensMutation(s): 2 
Gene Names: TIMP1 (CLGI, TIMP)
Find proteins for P01033 (Homo sapiens)
Go to Gene View: TIMP1
Go to UniProtKB:  P01033
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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

Download SDF File 
Download CCD File 
A, C
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, C
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Work: 0.197 
  • Space Group: P 43
Unit Cell:
Length (Å)Angle (°)
a = 80.620α = 90.00
b = 80.620β = 90.00
c = 157.620γ = 90.00
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORphasing
SCALEPACKdata scaling
DENZOdata reduction
MOSFLM/CCP4data collection
X-PLORrefinement
CCP4data reduction
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-10-14
    Type: Initial release
  • Version 1.1: 2008-03-25
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance