› 4bkl

X-ray diffraction
3.25Å resolution

Crystal structure of the arthritogenic antibody M2139 (Fab fragment) in complex with the triple-helical J1 peptide

Released:
DOI: 10.2210/pdb4bkl/pdb
PDB entry 4bkl coloured by chain, front view.
PDB entry 4bkl coloured by chain, side view.
PDB entry 4bkl coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Epitope-specific antibody response is controlled by immunoglobulin V(H) polymorphisms.
Raposo B, Dobritzsch D, Ge C, Ekman D, Xu B, Lindh I, Förster M, Uysal H, Nandakumar KS, Schneider G, Holmdahl R
J Exp Med 211 405-11 (2014)
PMID: 24534192

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-210969 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
M2139 FAB FRAGMENT HEAVY CHAIN Chain: A
Molecule details ›
Chain: A
Length: 231 amino acids
Theoretical weight: 24.69 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
M2139 FAB FRAGMENT LIGHT CHAIN Chain: B
Molecule details ›
Chain: B
Length: 218 amino acids
Theoretical weight: 23.96 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Collagen alpha-1(II) chain Chains: E, F, G
Molecule details ›
Chains: E, F, G
Length: 37 amino acids
Theoretical weight: 3.31 KDa
Source organism: Mus musculus
Expression system: Not provided
UniProt:
  • Canonical: P28481 (Residues: 735-771; Coverage: 3%)
Gene name: Col2a1

Ligands and Environments

No bound ligands
1 modified residue:
Ligand HYP 24 x HYP

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P3121
Unit cell:
a: 95.18Å b: 95.18Å c: 190.42Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.224 0.222 0.263
Expression system: Not provided

Quick links

Citations

7 review citations

Autoimmune priming, tissue attack and chronic inflammation - the three stages of rheumatoid arthritis.
Holmdahl et al. (2014)
6 more

7 mentions without citation

The Potential of Secondary Metabolites from Plants as Drugs or Leads against Protozoan Neglected Diseases-Part III: In-Silico Molecular Docking Investigations.
Ogungbe et al. (2016)
6 more