RCSB PDB - 2WII: Complement C3b in complex with factor H domains 1-4
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Complement C3b in complex with factor H domains 1-4
This is version 2.2 of the entry. See complete history.
Structure of complement fragment C3b-factor H and implications for host protection by complement regulators.
Wu, J., Wu, Y.Q., Ricklin, D., Janssen, B.J., Lambris, J.D., Gros, P.
(2009) Nat Immunol 10: 728-733
- PubMed: 19503104 Search on PubMedSearch on PubMed Central
- DOI: https://doi.org/10.1038/ni.1755
- PubMed Abstract:
Factor H (FH) is an abundant regulator of complement activation and protects host cells from self-attack by complement. Here we provide insight into the regulatory activity of FH by solving the crystal structure of the first four domains of FH in complex with its target, complement fragment C3b. FH interacted with multiple domains of C3b, covering a large, extended surface area. The structure indicated that FH destabilizes the C3 convertase by competition and electrostatic repulsion and that FH enables proteolytic degradation of C3b by providing a binding platform for protease factor I while stabilizing the overall domain arrangement of C3b. Our results offer general models for complement regulation and provide structural explanations for disease-related mutations in the genes encoding both FH and C3b.
Organizational Affiliation:
Crystal and Structural Chemistry, Bijvoet Center for Biomolecular Research, Department of Chemistry, Utrecht University, Utrecht, The Netherlands.
Macromolecule Content
- Total Structure Weight: 209.59 kDa
- Atom Count: 14,442
- Modelled Residue Count: 1,781
- Deposited Residue Count: 1,837
- Unique protein chains: 3
Find similar proteins by:
(by identity cutoff) | 3D Structure
Find similar proteins by:
(by identity cutoff) | 3D Structure
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-6)-[beta-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | D | 6 | N-Glycosylation | ||
Glycosylation Resources | |||||
GlyTouCan: G52684JK GlyCosmos: G52684JK GlyGen: G52684JK |
Ligands 3 Unique | ||||
---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions |
NAG Query on NAG Download Ideal Coordinates CCD File | V [auth B] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | ||
GOL Query on GOL Download Ideal Coordinates CCD File | F [auth A] F [auth A], | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N | ||
CA Query on CA Download Ideal Coordinates CCD File | E [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.252 (Depositor), 0.240 (DCC)
- R-Value Work: 0.217 (Depositor), 0.200 (DCC)
- R-Value Observed: 0.218 (Depositor)
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 223.489 | α = 90 |
b = 84.946 | β = 90 |
c = 128.77 | γ = 90 |
Software Package:
Software Name | Purpose |
---|---|
PHENIX | refinement |
MOSFLM | data reduction |
SCALA | data scaling |
PHASER | phasing |
Revision History (Full details and data files)
- Version 1.0: 2009-06-09
Type: Initial release - Version 1.1: 2011-05-08
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2018-02-28
Changes: Database references, Source and taxonomy - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Other, Structure summary - Version 2.1: 2023-12-13
Changes: Data collection, Database references, Refinement description, Structure summary - Version 2.2: 2024-10-16
Changes: Structure summary