SMTL ID : 7q7r.1

Crystal structure of human BCL6 BTB domain in complex with compound 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x 9IH: 2-chloranyl-4-[[(2S)-2-cyclopropyl-3,3-bis(fluoranyl)-7-methyl-6-oxidanylidene-2,4-dihydro-1H-[1,4]oxazepino[2,3-c]quinolin-10-yl]amino]pyridine-3-carbonitrile(Non-covalent)

9IH.1: 17 residues within 4Å: Chain A: M.66, A.67, C.68, S.69, G.70, Y.73, F.104, Q.128, M.129, E.130 Chain B: H.29, D.32, V.33, N.36, R.39, L.40, R.43 11 PLIP interactions: 7 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:Y.73, B:D.32 Hydrogen bonds: A:M.66, A:A.67, A:E.130 Water bridges: A:H.131, A:H.131, B:N.36, B:R.43, B:R.43 pi-Stacking: A:Y.73 9IH.3: 17 residues within 4Å: Chain A: H.29, D.32, V.33, N.36, R.39, L.40, R.43 Chain B: M.66, A.67, C.68, S.69, G.70, Y.73, F.104, Q.128, M.129, E.130 11 PLIP interactions: 3 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:D.32, B:Y.73 Water bridges: A:N.36, A:R.43, B:Y.73, B:H.131, B:H.131 Hydrogen bonds: B:M.66, B:A.67, B:E.130 pi-Stacking: B:Y.73

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

CL.2: 2 residues within 4Å: Chain A: Y.16, Q.18 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain B: Y.16, Q.18 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davis, O.A. et al., Optimizing Shape Complementarity Enables the Discovery of Potent Tricyclic BCL6 Inhibitors. J.Med.Chem. (2022)

Release Date

2022-06-15

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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