Experimental Data Snapshot

  • Resolution: 1.90 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.218 

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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: 1966-1976

  • DOI: https://doi.org/10.1002/pro.5560041002
  • Primary Citation of Related Structures:  
    1SLM, 1SLN

  • PubMed Abstract: 

    The proteolytic enzyme stromelysin-1 is a member of the family of matrix metalloproteinases and is believed to play a role in pathological conditions such as arthritis and tumor invasion. Stromelysin-1 is synthesized as a pro-enzyme that is activated by removal of an N-terminal prodomain. The active enzyme contains a catalytic domain and a C-terminal hemopexin domain believed to participate in macromolecular substrate recognition. We have determined the three-dimensional structures of both a C-truncated form of the proenzyme and an inhibited complex of the catalytic domain by X-ray diffraction analysis. The catalytic core is very similar in the two forms and is similar to the homologous domain in fibroblast and neutrophil collagenases, as well as to the stromelysin structure determined by NMR. The prodomain is a separate folding unit containing three alpha-helices and an extended peptide that lies in the active site of the enzyme. Surprisingly, the amino-to-carboxyl direction of this peptide chain is opposite to that adopted by the inhibitor and by previously reported inhibitors of collagenase. Comparison of the active site of stromelysin with that of thermolysin reveals that most of the residues proposed to play significant roles in the enzymatic mechanism of thermolysin have equivalents in stromelysin, but that three residues implicated in the catalytic mechanism of thermolysin are not represented in stromelysin.

  • Organizational Affiliation

    Department of Molecular Design and Diversity, Merck Research Laboratories, Rahway, New Jersey 07065, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
STROMELYSIN-1255Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P08254 (Homo sapiens)
Explore P08254 
Go to UniProtKB:  P08254
PHAROS:  P08254
GTEx:  ENSG00000149968 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08254
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.90 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.218 
  • Space Group: F 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 111.04α = 90
b = 145.56β = 90
c = 76.75γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
R-AXISdata reduction
R-AXISdata scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

  • Released Date: 1996-12-17 
  • Deposition Author(s): Becker, J.W.

Revision History  (Full details and data files)

  • Version 1.0: 1996-12-17
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2011-11-16
    Changes: Atomic model
  • Version 1.4: 2012-02-29
    Changes: Database references
  • Version 1.5: 2017-11-29
    Changes: Derived calculations, Other
  • Version 1.6: 2024-02-14
    Changes: Data collection, Database references, Derived calculations