1GJ4

SELECTIVITY AT S1, H2O DISPLACEMENT, UPA, TPA, SER190/ALA190 PROTEASE, STRUCTURE-BASED DRUG DESIGN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.81 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.202

Literature

Macromolecules
Sequence Display for 1GJ4

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 35624.99

Macromolecule Entities
Molecule Chains Length Organism Details
THROMBIN L 36 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: LIGHT CHAIN, RESIDUES 328-363
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
THROMBIN H 258 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: HEAVY CHAIN, RESIDUES 364-620
Gene Name(s): F2 Gene View
ACETYL HIRUDIN I 11 Hirudo medicinalis Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
132
Query on 132

H 6-CHLORO-2-(2-HYDROXY-BIPHENYL-3-YL)-1H-INDOLE- 5-CARBOXAMIDINE
C21 H17 Cl N3 O
FEKRWNWZMOSVBX-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

H SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
132 Ki: 60000 - 85000 nM (100) BindingDB

N/A in BindingMoad
Ki: 85000 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
TYS
Query on TYS
I L-PEPTIDE LINKING C9 H11 N O6 S TYR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.81 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.202
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 71.37 α = 90.00
b = 72.09 β = 100.97
c = 72.84 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-04-27
  • Released Date: 2002-04-27
  • Deposition author(s): Katz, B.A., Sprengeler, P.A., Luong, C., Verner, E., Spencer, J.R., Breitenbucher, J.G., Hui, H., McGee, D., Allen, D., Martelli, A., Mackman, R.L.

Revision History

  • Version 1_0: 2002-04-27

    Type: Initial release

  • Version 1_1: 2007-10-21

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance

  • Version 1_3: 2012-12-12

    Type: Other

  • Version 1_4: 2013-03-13

    Type: Other

  • Version 1_5: 2017-10-04

    Type: Refinement description