1QBV

CRYSTAL STRUCTURE OF THROMBIN COMPLEXED WITH AN GUANIDINE-MIMETIC INHIBITOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Observed: 0.193

Literature

Macromolecules
Sequence Display for 1QBV

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 35749.75

Macromolecule Entities
Molecule Chains Length Organism Details
THROMBIN (LIGHT CHAIN) L 36 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: LIGHT CHAIN
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
THROMBIN (HEAVY CHAIN) H 259 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: HEAVY CHAIN
Gene Name(s): F2 Gene View
Hirudin E 11 Hirudo medicinalis Fragment: residues 55-65
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PPX
Query on PPX

H [PHENYLALANINYL-PROLINYL]-[2-(PYRIDIN-4-YLAMINO)- ETHYL]-AMINE
C21 H27 N5 O2
GEIDRYBJURDUSW-MOPGFXCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
PPX Ki: 4100 nM (100) BindingDB

Ki: 4100 nM  BindingMOAD
Ki: 4100 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
TYS
Query on TYS
E L-PEPTIDE LINKING C9 H11 N O6 S TYR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Observed: 0.193
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 70.90 α = 90.00
b = 71.80 β = 100.52
c = 72.70 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-04-27
  • Released Date: 1999-10-27
  • Deposition author(s): Bone, R., Lu, T., Illig, C.R., Soll, R.M., Spurlino, J.C.

Revision History

  • 2008-04-27
    Type: Version format compliance
  • 2011-07-13
    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
  • 2012-12-12
    Type: Other
  • 2013-03-13
    Type: Other