3GHG

Crystal Structure of Human Fibrinogen

Structural Biology Knowledgebase: 3GHG SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.309
  • R-Value Work: 0.252

Literature

Macromolecules
Sequence Display for 3GHG

Classification: BLOOD CLOTTING

Total Structure Weight: 651393.63

Macromolecule Entities
Molecule Chains Length Organism Details
Fibrinogen alpha chain A, D, G, J 562 Homo sapiens Fragment: mature chain
Gene Name(s): FGA Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fibrinogen beta chain B, E, H, K 461 Homo sapiens Fragment: mature chain
Gene Name(s): FGB Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fibrinogen gamma chain C, F, I, L 411 Homo sapiens Fragment: mature chain
Gene Name(s): FGG Gene View PRO2061
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
A knob M, N, Q, R 4 synthetic
B knob O, P, S, T 4 synthetic

Small Molecules
Ligands 7 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SIA
Query on SIA

B, E, K O-SIALIC ACID
C11 H19 N O9
SQVRNKJHWKZAKO-YRMXFSIDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NDG
Query on NDG

B, E, H, K 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

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

B, E, H, K BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

B, E, K BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

B, E, H, K ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

B, C, E, F, H, I, K, L 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: 2.9 Å
  • R-Value Free: 0.309
  • R-Value Work: 0.252
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 135.24 α = 90.00
b = 94.87 β = 94.81
c = 300.81 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-03-03
  • Released Date: 2009-05-19
  • Deposition author(s): Doolittle, R.F., Kollman, J.M., Sawaya, M.R., Pandi, L., Riley, M.

Revision History

  • 2011-07-13
    Type: Refinement description | Details: Fixed TLS group
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor