1O39

Elaborate Manifold of Short Hydrogen Bond Arrays Mediating Binding of Active Site-Directed Serine Protease Inhibitors

Structural Biology Knowledgebase: 1O39 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.59 Å
  • R-Value Free: 0.195
  • R-Value Work: 0.183

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1O39

Classification: hydrolase

Total Structure Weight: 23692.86

Macromolecule Entities
Molecule Chains Length Organism Details
BETA-TRYPSIN A 223 Bos taurus EC#: 3.4.21.4 IUBMB
Gene Name(s):

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
780
Query on 780

A 3-{5-[AMINO(IMINIO)METHYL]-1H-BENZIMIDAZOL- 2-YL}-1,1'-BIPHENYL-2-OLATE
CRA_7806 (Synonym)
C20 H16 N4 O
LMGQGPVCSYOMNS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
780 Ki: 74 nM (100) BindingDB

Ki: 74 nM  BindingMOAD
Ki: 74 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.59 Å
  • R-Value Free: 0.195
  • R-Value Work: 0.183
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 63.86 α = 90.00
b = 62.42 β = 90.00
c = 69.66 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-03-06
  • Released Date: 2003-09-02
  • Deposition author(s): Katz, B.A., Elrod, K., Verner, E., Mackman, R.L., Luong, C., Shrader, W.D., Sendzik, M., Spencer, J.R., Sprengeler, P.A., Kolesnikov, A., Tai, V.W., Hui, H.C., Breitenbucher, J.G., Allen, D., Janc, J.W.

Revision History

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