1P53

The Crystal Structure of ICAM-1 D3-D5 fragment

Structural Biology Knowledgebase: 1P53 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.06 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.220

Literature

Macromolecules
Sequence Display for 1P53

Classification: CELL ADHESION

Total Structure Weight: 58986.69

Macromolecule Entities
Molecule Chains Length Organism Details
Intercellular adhesion molecule-1 A, B 266 Homo sapiens Fragment: ICAM-1 extracellular Domain 3-5, ecto-fragment
Gene Name(s): ICAM1 Gene View
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

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

A, B 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.06 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.220
  • Space Group: H 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 193.70 α = 90.00
b = 193.70 β = 90.00
c = 175.30 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-04-24
  • Released Date: 2004-05-04
  • Deposition author(s): Yang, Y., Jun, C.D., Liu, J.H., Zhang, R., Jochimiak, A., Springer, T.A., Wang, J.H.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4