2HWL

Crystal structure of thrombin in complex with fibrinogen gamma' peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.214

Literature

Macromolecules
Sequence Display for 2HWL

Classification: HYDROLASE

Total Structure Weight: 69652.03

Macromolecule Entities
Molecule Chains Length Organism Details
Prothrombin A, C 36 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: Thrombin light chain
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Prothrombin B, D 259 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: Thrombin heavy chain
Mutation: R77AA
Gene Name(s): F2 Gene View
Fibrinogen gamma' peptide P 14 Homo sapiens Mutation: Y418X, Y422X
Gene Name(s): FGG Gene View PRO2061
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

D N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

B, D SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
PTR
Query on PTR
P L-PEPTIDE LINKING C9 H12 N O6 P TYR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.214
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 66.40 α = 90.00
b = 81.52 β = 109.35
c = 70.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-08-01
  • Released Date: 2006-09-19
  • Deposition author(s): Pineda, A.O., Chen, Z.W., Marino, F., Mathews, F.S., Mosesson, M.W., Di Cera, E.

Revision History

  • Version 1_0: 2006-09-19

    Type: Initial release

  • Version 1_1: 2008-05-01

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Non-polymer description, Version format compliance