1M1J

Crystal structure of native chicken fibrinogen with two different bound ligands

Structural Biology Knowledgebase: 1M1J SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.256
  • R-Value Work: 0.227

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1M1J

Classification: BLOOD CLOTTING

Total Structure Weight: 311781.34

Macromolecule Entities
Molecule Chains Length Organism Details
Fibrinogen alpha subunit A, D 491 Gallus gallus Mutation: C49G
Gene Name(s): FGA Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fibrinogen beta chain B, E 464 Gallus gallus Gene Name(s): FGB Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fibrinogen gamma chain C, F 409 Gallus gallus Mutation: R286A
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
GLY-PRO-ARG-PRO peptide G, H 4 synthetic
GLY-HIS-ARG-PRO peptide I, J 4 synthetic

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

B, C, E, F, J 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

C, F, I N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

B, C, E, F CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.256
  • R-Value Work: 0.227
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 114.09 α = 90.00
b = 100.02 β = 105.79
c = 200.09 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-06-19
  • Released Date: 2002-06-26
  • Deposition author(s): Yang, Z., Kollman, J.M., Pandi, L., Doolittle, R.F.
  • Previous versions: 1JFE

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