1JH1

Crystal Structure of MMP-8 complexed with a 6H-1,3,4-thiadiazine derived inhibitor

Structural Biology Knowledgebase: 1JH1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.211

Literature

Macromolecules
Sequence Display for 1JH1

Classification: HYDROLASE

Total Structure Weight: 18102.99

Macromolecule Entities
Molecule Chains Length Organism Details
Matrix Metalloproteinase 8 A 158 Homo sapiens EC#: 3.4.24.34 IUBMB
Fragment: MMP-8 catalytic domain
Gene Name(s): MMP8 Gene View CLG1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A BUT-3-ENYL-[5-(4-CHLORO-PHENYL)-3,6-DIHYDRO- [1,3,4]THIADIAZIN-2-YLIDENE]-AMINE
3, (Synonym)
C13 H14 Cl N3 S
ZVZPCRKQNRRBOQ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

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

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
JST N/A in BindingDB
N/A in BindingMoad
Ki: 41000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.211
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 32.99 α = 90.00
b = 69.38 β = 90.00
c = 72.09 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-06-27
  • Released Date: 2001-12-27
  • Deposition author(s): Schroder, J., Henke, A., Wenzel, H., Brandstetter, H., Stammler, H.G., Stammler, A., Pfeiffer, W.D., Tschesche, H.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4