› 2or9

X-ray diffraction
2.7Å resolution

The structure of the anti-c-myc antibody 9E10 Fab fragment/epitope peptide complex reveals a novel binding mode dominated by the heavy chain hypervariable loops

Released:
DOI: 10.2210/pdb2or9/pdb
PDB entry 2or9 coloured by chain, front view.
PDB entry 2or9 coloured by chain, side view.
PDB entry 2or9 coloured by chain, top view.
Source organisms:
Primary publication:
The structure of the anti-c-myc antibody 9E10 Fab fragment/epitope peptide complex reveals a novel binding mode dominated by the heavy chain hypervariable loops.
Krauss N, Wessner H, Welfle K, Welfle H, Scholz C, Seifert M, Zubow K, Aÿ J, Hahn M, Scheerer P, Skerra A, Höhne W
Proteins 73 552-65 (2008)
PMID: 18473392

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero trimer (preferred)
hetero dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-208341 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Monoclonal anti-c-myc antibody 9E10 Chains: L, M
Molecule details ›
Chains: L, M
Length: 218 amino acids
Theoretical weight: 24 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Monoclonal anti-c-myc antibody 9E10 Chains: H, I
Molecule details ›
Chains: H, I
Length: 228 amino acids
Theoretical weight: 24.9 KDa
Source organism: Mus musculus
Structure domains: Immunoglobulins
Myc proto-oncogene protein Chain: P
Molecule details ›
Chain: P
Length: 11 amino acids
Theoretical weight: 1.32 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P01106 (Residues: 425-434; Coverage: 2%)
Gene names: BHLHE39, MYC
Sequence domains: Myc leucine zipper domain

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P212121
Unit cell:
a: 76.068Å b: 111.88Å c: 134.119Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.252 0.252 0.31
Expression system: Not provided

Quick links

Citations

1 review citation

Fragile epitopes-Antibody's guess is as good as yours.
Janes KA. (2020)
9 other articles

5 mentions without citation

OptMAVEn--a new framework for the de novo design of antibody variable region models targeting specific antigen epitopes.
Li et al. (2014)
4 more