› 3bd3

X-ray diffraction
1.6Å resolution

Crystal structure of single domain VL of an anti-DNA binding antibody 3D8 scFv and its active site revealed by complex structures of a small molecule and metals

Released:
DOI: 10.2210/pdb3bd3/pdb
PDB entry 3bd3 coloured by chain, front view.
PDB entry 3bd3 coloured by chain, side view.
PDB entry 3bd3 coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Crystal structure of single-domain VL of an anti-DNA binding antibody 3D8 scFv and its active site revealed by complex structures of a small molecule and metals.
Park SY, Lee WR, Lee SC, Kwon MH, Kim YS, Kim JS
Proteins 71 2091-6 (2008)
PMID: 18338383

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-234848 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
catalytic antibody Chains: A, B
Molecule details ›
Chains: A, B
Length: 112 amino acids
Theoretical weight: 12.46 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
Structure domains: Immunoglobulins

Ligands and Environments

1 bound ligand:
Ligand BTB 1 x BTB
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 4A
Spacegroup: P3121
Unit cell:
a: 61.746Å b: 61.746Å c: 95.752Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.229 0.229 0.27
Expression system: Escherichia coli

Quick links

Citations

10 citation in other articles

Cellular internalization mechanism and intracellular trafficking of filamentous M13 phages displaying a cell-penetrating transbody and TAT peptide.
Kim et al. (2012)
9 more

2 mentions without citation

Non-covalent albumin-binding ligands for extending the circulating half-life of small biotherapeutics.
Zorzi et al. (2019)
1 more