1ZTQ

Crystal structure of the catalytic domain of MMP-13 complexed with WAY-033


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.287
  • R-Value Work: 0.236

Literature

Macromolecules
Sequence Display for 1ZTQ

Classification: HYDROLASE

Total Structure Weight: 77405.68

Macromolecule Entities
Molecule Chains Length Organism Details
Collagenase 3 A, B, C, D 165 Homo sapiens EC#: 3.4.24 IUBMB
Fragment: MMP-13 CATALYTIC DOMAIN
Gene Name(s): MMP13 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
033
Query on 033

A, B, C, D N-({4'-[(1-BENZOFURAN-2-YLCARBONYL)AMINO]- 1,1'-BIPHENYL-4-YL}SULFONYL)-L-VALINE
WAY033 (Synonym)
C26 H24 N2 O6 S
HJFONKSERLWIGE-DEOSSOPVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, C, D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A, B, C, D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
033 IC50: 1.3 - 2.4 nM (96 - 100) BindingDB

IC50: 1.3 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.287
  • R-Value Work: 0.236
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 35.94 α = 90.00
b = 135.25 β = 104.95
c = 69.39 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-05-27
  • Released Date: 2006-05-30
  • Deposition author(s): Wu, J., Rush III, T.S., Hotchandani, R., Du, X., Geck, M., Collins, E., Xu, Z.B., Skotnicki, J., Levin, J.I., Lovering, F.

Revision History

  • Version 1_0: 2006-05-30

    Type: Initial release

  • Version 1_1: 2008-04-30

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance