› 4d9r

X-ray diffraction
2.42Å resolution

Inhibiting Alternative Pathway Complement Activation by Targeting the Exosite on Factor D

Released:
DOI: 10.2210/pdb4d9r/pdb
PDB entry 4d9r coloured by chain, front view.
PDB entry 4d9r coloured by chain, side view.
PDB entry 4d9r coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Inhibiting alternative pathway complement activation by targeting the factor D exosite.
Katschke KJ, Wu P, Ganesan R, Kelley RF, Mathieu MA, Hass PE, Murray J, Kirchhofer D, Wiesmann C, van Lookeren Campagne M
J Biol Chem 287 12886-92 (2012)
PMID: 22362762

Function and Biology Details

Reaction catalysed: 
Selective cleavage of Arg-|-Lys bond in complement factor B when in complex with complement subcomponent C3b or with cobra venom factor.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-133226 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Complement factor D Chains: A, B
Molecule details ›
Chains: A, B
Length: 228 amino acids
Theoretical weight: 24.44 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P00746 (Residues: 26-253; Coverage: 98%)
Gene names: CFD, DF, PFD
Sequence domains: Trypsin
Structure domains: Trypsin-like serine proteases
Immunoglobulin kappa constant Chains: D, L
Molecule details ›
Chains: D, L
Length: 214 amino acids
Theoretical weight: 23.24 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01834 (Residues: 2-107; Coverage: 99%)
Gene name: IGKC
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins
Immunoglobulin heavy constant gamma 1 Chains: E, H
Molecule details ›
Chains: E, H
Length: 218 amino acids
Theoretical weight: 23.19 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P01857 (Residues: 1-103; Coverage: 26%)
Gene name: IGHG1
Sequence domains: Immunoglobulin C1-set domain
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:
Ligand CL 2 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-2
Spacegroup: P43212
Unit cell:
a: 132.048Å b: 132.048Å c: 180.288Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.215 0.213 0.251
Expression system: Escherichia coli

Quick links

Citations

31 review citations

Validating therapeutic targets through human genetics.
Plenge et al. (2013)
30 more

3 mentions without citation

Inhibiting alternative pathway complement activation by targeting the factor D exosite.
Katschke et al. (2012)
2 more