› 3okk

X-ray diffraction
1.95Å resolution

Crystal structure of S25-39 in complex with Kdo(2.4)Kdo

Released:
DOI: 10.2210/pdb3okk/pdb
PDB entry 3okk coloured by chain, front view.
PDB entry 3okk coloured by chain, side view.
PDB entry 3okk coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
A common NH53K mutation in the combining site of antibodies raised against chlamydial LPS glycoconjugates significantly increases avidity.
Blackler RJ, Müller-Loennies S, Brooks CL, Evans DW, Brade L, Kosma P, Brade H, Evans SV
Biochemistry 50 3357-68 (2011)
PMID: 21405106

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-213351 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
S25-39 Fab (IgG1k) light chain Chain: A
Molecule details ›
Chain: A
Length: 220 amino acids
Theoretical weight: 24.27 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
S25-39 Fab (IgG1k) heavy chain Chain: B
Molecule details ›
Chain: B
Length: 222 amino acids
Theoretical weight: 24.02 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: KDA, KDO
Ligand KDA 1 x KDA
Ligand KDO 1 x KDO
1 bound ligand:
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-002
Spacegroup: P212121
Unit cell:
a: 45.628Å b: 81.441Å c: 131.577Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.197 0.195 0.234

Quick links

Citations

1 review citation

Antibody recognition of carbohydrate epitopes†.
Haji-Ghassemi et al. (2015)
5 other articles

1 mention without citation

Antibody recognition of cancer-related gangliosides and their mimics investigated using in silico site mapping.
Agostino et al. (2012)