1OYH

Crystal Structure of P13 Alanine Variant of Antithrombin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.221

Literature

Macromolecules
Sequence Display for 1OYH

Classification: BLOOD CLOTTING

Total Structure Weight: 100880.55

Macromolecule Entities
Molecule Chains Length Organism Details
Antithrombin-III I 432 Homo sapiens Mutation: S137A, E381A
Details: E381A mutant on the beta glycoform background of S137A
Gene Name(s): SERPINC1 Gene View AT3 PRO0309
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Antithrombin-III L 432 Homo sapiens Details: beta glycoform
Gene Name(s): SERPINC1 Gene View AT3 PRO0309

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NDG
Query on NDG

L 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

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

L ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

L BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.258
  • R-Value Work: 0.221
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 69.00 α = 90.00
b = 98.57 β = 105.53
c = 89.35 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-04-04
  • Released Date: 2004-04-13
  • Deposition author(s): Johnson, D.J.D., Huntington, J.A.

Revision History

  • Version 1_0: 2004-04-13

    Type: Initial release

  • Version 1_1: 2008-04-29

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Non-polymer description, Version format compliance

  • Version 1_3: 2017-10-11

    Type: Refinement description