3I7G

MMP-13 in complex with a non zinc-chelating inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.173 
  • R-Value Observed: 0.176 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Improving potency and selectivity of a new class of non-Zn-chelating MMP-13 inhibitors.

Heim-Riether, A.Taylor, S.J.Liang, S.Gao, D.A.Xiong, Z.Michael August, E.Collins, B.K.Farmer, B.T.Haverty, K.Hill-Drzewi, M.Junker, H.D.Mariana Margarit, S.Moss, N.Neumann, T.Proudfoot, J.R.Keenan, L.S.Sekul, R.Zhang, Q.Li, J.Farrow, N.A.

(2009) Bioorg Med Chem Lett 19: 5321-5324

  • DOI: 10.1016/j.bmcl.2009.07.151
  • Primary Citation of Related Structures:  
    3I7I, 3I7G

  • PubMed Abstract: 
  • Discovery and optimization of potency and selectivity of a non-Zn-chelating MMP-13 inhibitor with the aid of protein co-crystal structural information is reported. This inhibitor was observed to have a binding mode distinct from previously published ...

    Discovery and optimization of potency and selectivity of a non-Zn-chelating MMP-13 inhibitor with the aid of protein co-crystal structural information is reported. This inhibitor was observed to have a binding mode distinct from previously published MMP-13 inhibitors. Potency and selectivity were improved by extending the hit structure out from the active site into the S1' pocket.


    Organizational Affiliation

    Boehringer Ingelheim Pharmaceuticals, Department of Medicinal Chemistry, 900 Ridgebury Rd, Ridgefield, CT 06877, USA. alexander.heim-riether@boehringer-ingelheim.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Collagenase 3AB171Homo sapiensMutation(s): 0 
Gene Names: MMP13
EC: 3.4.24
Find proteins for P45452 (Homo sapiens)
Explore P45452 
Go to UniProtKB:  P45452
NIH Common Fund Data Resources
PHAROS  P45452
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
732IC50 :  430   nM  PDBBind
732IC50:  430   nM  BindingDB
732IC50:  430   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.173 
  • R-Value Observed: 0.176 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 133.77α = 90
b = 36.1β = 130.77
c = 95.333γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2009-07-08 
  • Released Date: 2009-09-01 
  • Deposition Author(s): Farrow, N.A.

Revision History 

  • Version 1.0: 2009-09-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance