2WO8

MMP12 complex with a beta hydroxy carboxylic acid


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The Identification of Beta-Hydroxy Carboxylic Acids as Selective Mmp-12 Inhibitors.

Holmes, I.P.Gaines, S.Watson, S.P.Lorthioir, O.Walker, A.Baddeley, S.J.Herbert, S.Egan, D.Convery, M.A.Singh, O.M.P.Gross, J.W.Strelow, J.M.Smith, R.H.Amour, A.J.Brown, D.Martin, S.L.

(2009) Bioorg Med Chem Lett 19: 5760

  • DOI: 10.1016/j.bmcl.2009.07.155
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • A new class of selective MMP-12 inhibitors have been identified via high throughput screening. Crystallization with MMP-12 confirmed the mode of binding and allowed initial optimization to be carried out using classical structure based design.


    Organizational Affiliation

    GSK Medicines Research Centre, Gunnels Wood Road, Stevenage, Hertfordshire SG1 2NY, United Kingdom.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MACROPHAGE METALLOELASTASEA, B, C, D164Homo sapiensMutation(s): 0 
Gene Names: MMP12HME
EC: 3.4.24.65
Find proteins for P39900 (Homo sapiens)
Explore P39900 
Go to UniProtKB:  P39900
NIH Common Fund Data Resources
PHAROS  P39900
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
023
Query on 023

Download CCD File 
B, D
N^2^-[(2R)-2-{(1S)-1-[FORMYL(HYDROXY)AMINO]ETHYL}-5-PHENYLPENTANOYL]-N,3-DIMETHYL-L-VALINAMIDE
C21 H33 N3 O4
GHVMTHKJUAOZJP-CGTJXYLNSA-N
 Ligand Interaction
077
Query on 077

Download CCD File 
A, C
(3S)-5-biphenyl-4-yl-3-hydroxypentanoic acid
C17 H18 O3
ILGSIIFHQGOKKV-INIZCTEOSA-N
 Ligand Interaction
SO4
Query on SO4

Download CCD File 
A, B, C, D
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

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D
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

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

Download CCD File 
A, B, C, D
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
077IC50:  520   nM  Binding MOAD
77IC50 :  520   nM  PDBBind
077IC50:  520   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.187 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.043α = 66.47
b = 65.264β = 83.86
c = 67.808γ = 71.37
Software Package:
Software NamePurpose
REFMACrefinement
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-09-08
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance