Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 38.33 kDa 
• Atom Count: 2936 
• Residue Count: 318 
• Unique protein chains: 1

1G5N

ANNEXIN V COMPLEX WITH HEPARIN OLIGOSACCHARIDES

• DOI: 10.2210/pdb1G5N/pdb

• Classification: BLOOD CLOTTING
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-11-01 Released: 2001-06-06 
• Deposition Author(s): Capila, I., Heraiz, M.J., Mo, Y.D., Mealy, T.R., Campos, B., Dedman, J.R., Linhardt, R.J., Seaton, B.A.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.238 
• R-Value Work: 0.208 
• R-Value Observed: 0.208 

Literature

Annexin V--heparin oligosaccharide complex suggests heparan sulfate--mediated assembly on cell surfaces.

Capila, I., Hernaiz, M.J., Mo, Y.D., Mealy, T.R., Campos, B., Dedman, J.R., Linhardt, R.J., Seaton, B.A.

(2001) Structure 9: 57-64

• PubMed: 11342135 
• DOI: 10.1016/s0969-2126(00)00549-9
• Primary Citation of Related Structures:  
  1G5N


• PubMed Abstract: 
  

Annexin V, an abundant anticoagulant protein, has been proposed to exert its effects by self-assembling into highly ordered arrays on phospholipid membranes to form a protective anti-thrombotic shield at the cell surface. The protein exhibits very high-affinity calcium-dependent interactions with acidic phospholipid membranes, as well as specific binding to glycosaminoglycans (GAGs) such as heparin and heparan sulfate, a major component of cell surface proteoglycans. At present, there is no structural information to elucidate this interaction or the role it may play in annexin V function at the cell surface.

---

Organizational Affiliation: 

Division of Medicinal and Natural Products Chemistry, Department of Chemistry, University of Iowa, Iowa City, IA 52242, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ANNEXIN V	A	318	Rattus norvegicus	Mutation(s): 0  Gene Names: LC5, Anxa5, Anx5
Find proteins for P14668 (Rattus norvegicus) Explore P14668  Go to UniProtKB:  P14668

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram
4-deoxy-2-O-sulfo-alpha-L-threo-hex-4-enopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose	B, C	4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.238 
• R-Value Work: 0.208 
• R-Value Observed: 0.208 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 155.874	α = 90
b = 155.874	β = 90
c = 37.344	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-11-01 
• Released Date: 2001-06-06 
Deposition Author(s): Capila, I., Heraiz, M.J., Mo, Y.D., Mealy, T.R., Campos, B., Dedman, J.R., Linhardt, R.J., Seaton, B.A.

Revision History 

• Version 1.0: 2001-06-06
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary