3ZD2

THE STRUCTURE OF THE TWO N-TERMINAL DOMAINS OF COMPLEMENT FACTOR H RELATED PROTEIN 1 SHOWS FORMATION OF A NOVEL DIMERISATION INTERFACE

• PDB DOI: https://doi.org/10.2210/pdb3ZD2/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Kluyveromyces lactis
• Mutation(s): No 


• Deposited: 2012-11-23 Released: 2013-03-13 
• Deposition Author(s): Caesar, J.J.E., Goicoechea de Jorge, E., Pickering, M.C., Lea, S.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free: 0.248 
• R-Value Work: 0.221 
• R-Value Observed: 0.222 

Starting Model: experimental

Literature

Dimerization of Complement Factor H-Related Proteins Modulates Complement Activation in Vivo.

Goicoechea De Jorge, E., Caesar, J.J.E., Malik, T.H., Patel, M., Colledge, M., Johnson, S., Hakobyan, S., Morgan, B.P., Harris, C.L., Pickering, M.C., Lea, S.M.

(2013) Proc Natl Acad Sci U S A 110: 4685

• PubMed: 23487775 
• DOI: https://doi.org/10.1073/pnas.1219260110
• Primary Citation of Related Structures:  
  3ZD1, 3ZD2


• PubMed Abstract: 
  

  The complement system is a key component regulation influences susceptibility to age-related macular degeneration, meningitis, and kidney disease. Variation includes genomic rearrangements within the complement factor H-related (CFHR) locus. Elucidating the mechanism underlying these associations has been hindered by the lack of understanding of the biological role of CFHR proteins. Here we present unique structural data demonstrating that three of the CFHR proteins contain a shared dimerization motif and that this hitherto unrecognized structural property enables formation of both homodimers and heterodimers. Dimerization confers avidity for tissue-bound complement fragments and enables these proteins to efficiently compete with the physiological complement inhibitor, complement factor H (CFH), for ligand binding. Our data demonstrate that these CFHR proteins function as competitive antagonists of CFH to modulate complement activation in vivo and explain why variation in the CFHRs predisposes to disease.

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Organizational Affiliation: 

Centre for Complement and Inflammation Research, Department of Medicine, Imperial College, London W12 0NN, United Kingdom.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 29.79 kDa 
• Atom Count: 2,119 
• Modelled Residue Count: 244 
• Deposited Residue Count: 250 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
COMPLEMENT FACTOR H-RELATED PROTEIN 1	A, B	125	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q03591 (Homo sapiens) Explore Q03591  Go to UniProtKB:  Q03591
PHAROS:  Q03591 GTEx:  ENSG00000244414

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A], L [auth B], M [auth B], N [auth B], O [auth B], P [auth B], Q [auth B], R [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.99 Å
• R-Value Free: 0.248 
• R-Value Work: 0.221 
• R-Value Observed: 0.222 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.27	α = 90
b = 46.88	β = 90
c = 111.66	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-03-13 
Deposition Author(s): Caesar, J.J.E., Goicoechea de Jorge, E., Pickering, M.C., Lea, S.M.

Revision History  

• Version 1.0: 2013-03-13
  Type: Initial release
  
• Version 1.1: 2013-03-27
  Changes: Database references
• Version 1.2: 2013-04-03
  Changes: Database references
• Version 1.3: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.4: 2024-11-06
  Changes: Structure summary