1GKC

MMP9-INHIBITOR COMPLEX

Structural Biology Knowledgebase: 1GKC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 1GKC

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 38062.30

Macromolecule Entities
Molecule Chains Length Organism Details
92 KDA TYPE IV COLLAGENASE A, B 163 Homo sapiens EC#: 3.4.24.35 IUBMB
Fragment: CATALYTIC DOMAIN RESIDUES 107-215,391-443
Gene Name(s): MMP9 Gene View CLG4B
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B N~2~-[(2R)-2-{[formyl(hydroxy)amino]methyl}- 4-methylpentanoyl]-N,3-dimethyl-L-valinamide
C15 H29 N3 O4
YRLGSCVOSAUJJE-VXGBXAGGSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

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

A, B CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.207
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 56.01 α = 90.00
b = 56.01 β = 90.00
c = 262.65 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-08-10
  • Released Date: 2002-05-16
  • Deposition author(s): Rowsell, S., Pauptit, R.A.

Revision History

  • 2011-07-13
    Type: Linkage | Details: Linkage
  • 2011-07-13
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4
  • 2011-07-13
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-13
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-13
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-13
    Type: Function and keywords | Details: Function and keywords