› 2j3f

X-ray diffraction
2.8Å resolution

L-ficolin complexed to N-acetyl-D-galactosamine

Released:
DOI: 10.2210/pdb2j3f/pdb
PDB entry 2j3f coloured by chain, front view.
PDB entry 2j3f coloured by chain, side view.
PDB entry 2j3f coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural insights into the innate immune recognition specificities of L- and H-ficolins.
Garlatti V, Belloy N, Martin L, Lacroix M, Matsushita M, Endo Y, Fujita T, Fontecilla-Camps JC, Arlaud GJ, Thielens NM, Gaboriaud C
EMBO J 26 623-33 (2007)
PMID: 17215869

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
homo trimer
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-172308 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (4 distinct):
Ficolin-2 Chains: A, B, C, E, F
Molecule details ›
Chains: A, B, C, E, F
Length: 219 amino acids
Theoretical weight: 24.84 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q15485 (Residues: 95-313; Coverage: 76%)
Gene names: FCN2, FCNL
Sequence domains: Fibrinogen beta and gamma chains, C-terminal globular domain
Structure domains:
Ficolin-2 Chain: D
Molecule details ›
Chain: D
Length: 219 amino acids
Theoretical weight: 24.85 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q15485 (Residues: 95-313; Coverage: 76%)
Gene names: FCN2, FCNL
Sequence domains: Fibrinogen beta and gamma chains, C-terminal globular domain
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
4 bound ligands:
Ligand CA 5 x CA
Ligand A2G 4 x A2G
Ligand P4C 2 x P4C
Ligand EPE 1 x EPE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM30A
Spacegroup: P32
Unit cell:
a: 96.825Å b: 96.825Å c: 141.898Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.224 0.222 0.277
Expression system: Trichoplusia ni

Quick links

Citations

33 review citations

An integrated view of humoral innate immunity: pentraxins as a paradigm.
Bottazzi et al. (2010)
32 more

4 mentions without citation

Structural insights into the innate immune recognition specificities of L- and H-ficolins.
Garlatti et al. (2007)
3 more