SMTL ID : 5n1z.1

Crystal structure of the BCL6 BTB domain in complex with pyrazolo-pyrimidine macrocyclic ligand

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.81 Å

Oligo State

homo-dimer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 5 residues within 4Å: Chain A: M.109, E.110, H.111, V.112 Ligands: 8GQ.2 Ligand excluded by PLIP CL.3: 5 residues within 4Å: Chain B: M.109, E.110, H.111, V.112 Ligands: 8GQ.4 Ligand excluded by PLIP

2 x 8GQ: pyrazolo-pyrimidine macrocycle(Non-covalent)

8GQ.2: 14 residues within 4Å: Chain A: M.46, A.47, C.48, S.49, G.50, Y.53, Q.108, M.109, E.110 Chain B: N.16, R.19, L.20, R.23 Ligands: CL.1 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:Y.53, A:Y.53, A:Y.53, B:L.20 Hydrogen bonds: A:M.46, A:G.50, A:Y.53, A:E.110, B:R.23 Water bridges: A:Q.108, A:Q.108 8GQ.4: 14 residues within 4Å: Chain A: N.16, R.19, L.20, R.23 Chain B: M.46, A.47, C.48, S.49, G.50, Y.53, Q.108, M.109, E.110 Ligands: CL.3 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.53, B:Y.53, B:Y.53, A:L.20 Hydrogen bonds: B:M.46, B:G.50, B:Y.53, B:Y.53, B:E.110, B:E.110, A:R.23 Water bridges: B:Q.108, B:Q.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McCoull, W. et al., Discovery of Pyrazolo[1,5-a]pyrimidine B-Cell Lymphoma 6 (BCL6) Binders and Optimization to High Affinity Macrocyclic Inhibitors. J. Med. Chem. (2017)

Release Date

2017-05-17

Peptides

B-cell lymphoma 6 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

B-cell lymphoma 6 protein

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