1AWF

NOVEL COVALENT THROMBIN INHIBITOR FROM PLANT EXTRACT

Structural Biology Knowledgebase: 1AWF SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Observed: 0.196

Literature

Macromolecules
Sequence Display for 1AWF

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 35977.25

Macromolecule Entities
Molecule Chains Length Organism Details
ALPHA THROMBIN L 36 Homo sapiens EC#: 3.4.21.5 IUBMB
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
ALPHA THROMBIN H 259 Homo sapiens EC#: 3.4.21.5 IUBMB
Gene Name(s): F2 Gene View
HIRUGEN I 10 Hirudo medicinalis Details: ACTIVE SITE INHIBITOR OF THROMBIN
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GR4
Query on GR4

H R3-ACETOXY-17-(1-FORMYL-5-METHYL-3-OXO-HEX- 4-ENYL)-12,16-DIHYDROXY-14-HYDROXYMETHYL- 4,10,13-TRIMETHYL-2,3,4,5,6,9,10,11,12,13,14,15,16,17- TETRADECAHYDRO-1H-CYCLOPENTA[A]PHENANTHRENE- 4-CARBOXYLIC ACID IDOPYRANOSYL ESTER
C38 H56 O14
ICEIDITWEARXBX-KIWBXHNRSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
GR4 N/A in BindingDB
N/A in BindingMoad
Ki: 970 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: 2.2 Å
  • R-Value Observed: 0.196
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 71.92 α = 90.00
b = 71.84 β = 100.39
c = 73.01 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1997-10-02
  • Released Date: 1998-10-28
  • Deposition author(s): Jhoti, H., Cleasby, A., Wonacott, 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 PDB 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