Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 22.55 kDa 
• Atom Count: 1755 
• Modelled Residue Count: 187 
• Deposited Residue Count: 187 
• Unique protein chains: 1

2UWN

Crystal structure of Human Complement Factor H, SCR domains 6-8 (H402 risk variant), in complex with ligand.

• PDB DOI: 10.2210/pdb2UWN/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-03-22 Released: 2007-10-02 
• Deposition Author(s): Prosser, B.E., Johnson, S., Roversi, P., Herbert, A.P., Blaum, B.S., Tyrrell, J., Jowitt, T.A., Clark, S.J., Terelli, E., Uhrin, D., Barlow, P.N., Sim, R.B., Day, A.J., Lea, S.M.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.246 
• R-Value Work: 0.214 
• R-Value Observed: 0.214 

Literature

Structural Basis for Complement Factor H Linked Age-Related Macular Degeneration.

Prosser, B.E., Johnson, S., Roversi, P., Herbert, A.P., Blaum, B.S., Tyrrell, J., Jowitt, T.A., Clark, S.J., Tarelli, E., Uhrin, D., Barlow, P.N., Sim, R.B., Day, A.J., Lea, S.M.

(2007) J Exp Med 204: 2277

• PubMed: 17893204 
• DOI: 10.1084/jem.20071069
• Primary Citation of Related Structures:  
  2UWN, 2V8E


• PubMed Abstract: 
  

Nearly 50 million people worldwide suffer from age-related macular degeneration (AMD), which causes severe loss of central vision. A single-nucleotide polymorphism in the gene for the complement regulator factor H (FH), which causes a Tyr-to-His substitution at position 402, is linked to approximately 50% of attributable risks for AMD. We present the crystal structure of the region of FH containing the polymorphic amino acid His402 in complex with an analogue of the glycosaminoglycans (GAGs) that localize the complement regulator on the cell surface. The structure demonstrates direct coordination of ligand by the disease-associated polymorphic residue, providing a molecular explanation of the genetic observation. This glycan-binding site occupies the center of an extended interaction groove on the regulator's surface, implying multivalent binding of sulfated GAGs. This finding is confirmed by structure-based site-directed mutagenesis, nuclear magnetic resonance-monitored binding experiments performed for both H402 and Y402 variants with this and another model GAG, and analysis of an extended GAG-FH complex.

---

Organizational Affiliation: 

Sir William Dunn School of Pathology, University of Oxford, Oxford, OX1 3RE, England, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HUMAN COMPLEMENT FACTOR H	A	187	Homo sapiens	Mutation(s): 0  Gene Names: CFH, HF, HF1, HF2
UniProt & NIH Common Fund Data Resources
Find proteins for P08603 (Homo sapiens) Explore P08603  Go to UniProtKB:  P08603
PHAROS:  P08603 GTEx:  ENSG00000000971

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
1,3,4,6-tetra-O-sulfo-beta-D-fructofuranose-(2-1)-2,3,4,6-tetra-O-sulfonato-alpha-D-glucopyranose	B	2		N/A
Glycosylation Resources
GlyTouCan:  G97555GV GlyCosmos:  G97555GV

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	F [auth A], G [auth A], H [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ACT	C [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
CL	D [auth A], E [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900013	B	sucrose octasulfate	Oligosaccharide / Substrate analog		Ligand Interaction

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.35 Å
• R-Value Free: 0.246 
• R-Value Work: 0.214 
• R-Value Observed: 0.214 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.756	α = 90
b = 92.491	β = 90
c = 57.311	γ = 90

Software Package:

Software Name	Purpose
DM	model building
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
BUSTER-TNT	phasing
SHARP-SOLOMON	phasing
DM	phasing
pirate	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-03-22 
• Released Date: 2007-10-02 
Deposition Author(s): Prosser, B.E., Johnson, S., Roversi, P., Herbert, A.P., Blaum, B.S., Tyrrell, J., Jowitt, T.A., Clark, S.J., Terelli, E., Uhrin, D., Barlow, P.N., Sim, R.B., Day, A.J., Lea, S.M.

Revision History  

• Version 1.0: 2007-10-02
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Refinement description, Structure summary