SMTL ID : 7lzq.1

Crystal structure of the BCL6 BTB domain in complex with OICR-4425

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.71 Å

Oligo State

homo-dimer

Ligands

2 x YJV: N-(3-chloropyridin-4-yl)-2-(5-methyl-4-oxo-4,5-dihydro-1H-pyrrolo[3,2-c]pyridin-1-yl)acetamide(Non-covalent)

YJV.1: 12 residues within 4Å: Chain A: M.51, A.52, C.53, S.54, G.55, Y.58, Q.113, M.114, E.115 Chain B: N.21, R.24, L.25 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.58 Hydrogen bonds: A:M.51, A:E.115, B:N.21 Water bridges: A:H.116 YJV.3: 12 residues within 4Å: Chain A: N.21, R.24, L.25 Chain B: M.51, A.52, C.53, S.54, G.55, Y.58, Q.113, M.114, E.115 5 PLIP interactions: 1 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:N.21, B:M.51, B:E.115 Hydrophobic interactions: B:Y.58 Water bridges: B:H.116

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 5 residues within 4Å: Chain A: I.9, Q.10, F.11 Chain B: H.116, T.120 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:F.11 DMS.4: 5 residues within 4Å: Chain A: H.116, T.120 Chain B: I.9, Q.10, F.11 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A pi-Cation interactions: B:F.11 Hydrogen bonds: A:T.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mamai, A. et al., Discovery of OICR12694: A Novel, Potent, Selective, and Orally Bioavailable BCL6 BTB Inhibitor. Acs Med.Chem.Lett. (2023)

Release Date

2022-08-17

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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