› 5x4n

X-ray diffraction
1.94Å resolution

Crystal structure of the BCL6 BTB domain in complex with Compound 4

Released:
DOI: 10.2210/pdb5x4n/pdb
PDB entry 5x4n coloured by chain, front view.
PDB entry 5x4n coloured by chain, side view.
PDB entry 5x4n coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Discovery of a B-Cell Lymphoma 6 Protein-Protein Interaction Inhibitor by a Biophysics-Driven Fragment-Based Approach.
Kamada Y, Sakai N, Sogabe S, Ida K, Oki H, Sakamoto K, Lane W, Snell G, Iida M, Imaeda Y, Sakamoto J, Matsui J
J Med Chem 60 4358-4368 (2017)
PMID: 28471657

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-544654 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
B-cell lymphoma 6 protein Chain: A
Molecule details ›
Chain: A
Length: 141 amino acids
Theoretical weight: 16.29 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P41182 (Residues: 5-129; Coverage: 18%)
Gene names: BCL5, BCL6, LAZ3, ZBTB27, ZNF51
Sequence domains: BTB/POZ domain
Structure domains: Potassium Channel Kv1.1; Chain A

Ligands and Environments

2 bound ligands:
Ligand 7ZL 1 x 7ZL
Ligand EDO 1 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.3
Spacegroup: P6122
Unit cell:
a: 66.602Å b: 66.602Å c: 154.609Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.189 0.188 0.209
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Targeting Transcription Factors for Cancer Treatment.
Lambert et al. (2018)
1 more

1 mention without citation

Progress toward B-Cell Lymphoma 6 BTB Domain Inhibitors for the Treatment of Diffuse Large B-Cell Lymphoma and Beyond.
Ai et al. (2021)