1O2Y

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

Structural Biology Knowledgebase: 1O2Y SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.204

Literature

Macromolecules
Sequence Display for 1O2Y

Classification: hydrolase

Total Structure Weight: 23809.71

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

Membrane Protein

Source: inferred by homology | Group: BETA-BARREL

Subgroup Name: Omp85-TpsB Outer Membrane Transporter Superfamily

Protein Name: BamABCDE complex of the Bam β-barrel assembly machine


Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
847
Query on 847

A 2-(3-{5-[AMINO(IMINIO)METHYL]-1H-BENZIMIDAZOL- 2-YL}-5-BROMO-4-OXIDOPHENYL)SUCCINATE
CRA_16847 (Synonym)
C18 H13 Br N4 O5
SJMNJNRKVVVGRB-SECBINFHSA-L
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 %)
847 Ki: 1400 nM (100) BindingDB

Ki: 1400 nM  BindingMOAD
Ki: 1400 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.45 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.204
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 63.93 α = 90.00
b = 61.94 β = 90.00
c = 69.96 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