2FFD

Fibrinogen Fragment D with "A" knob peptide mimic GPRVVE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.89 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.211

Literature

Macromolecules
Sequence Display for 2FFD

Classification: BLOOD CLOTTING

Total Structure Weight: 161810.94

Macromolecule Entities
Molecule Chains Length Organism Details
Fibrinogen alpha/alpha-E Chain A, D 66 Homo sapiens Fragment: residues 145-210
Gene Name(s): FGA Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fibrinogen beta chain B, E 313 Homo sapiens Fragment: residues 179-491
Gene Name(s): FGB Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fibrinogen gamma chain C, F 311 Homo sapiens Fragment: residues 122-432
Gene Name(s): FGG Gene View PRO2061
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
GLY-PRO-ARG-VAL-VAL-GLU peptide G, H, I, J 6 synthetic

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

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

B, E ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.89 Å
  • R-Value Free: 0.268
  • R-Value Work: 0.211
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 89.52 α = 90.00
b = 94.65 β = 90.00
c = 227.49 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2005-12-19
  • Released Date: 2006-07-04
  • Deposition author(s): Betts, L.

Revision History

  • Version 1_0: 2006-07-04

    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

  • Version 1_3: 2017-10-18

    Type: Refinement description