SMTL ID : 7bde.1

HUMAN BCL6 BTB-DOMAIN IN COMPLEX WITH GSK137

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-dimer

Ligands

2 x TEQ: 5-[(5S,7R)-3-fluoranyl-7-(2-methylpyridin-3-yl)-4,5,6,7-tetrahydropyrazolo[1,5-a]pyrimidin-5-yl]quinolin-2-amine(Non-covalent)

TEQ.1: 11 residues within 4Å: Chain A: M.49, A.50, C.51, S.52, G.53, Y.56, Q.111, E.113 Chain B: N.19, R.22, L.23 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:M.49, A:G.53, A:E.113, B:R.22 Water bridges: A:E.113 pi-Stacking: A:Y.56 pi-Cation interactions: B:R.22 TEQ.4: 11 residues within 4Å: Chain A: N.19, R.22, L.23 Chain B: M.49, A.50, C.51, S.52, G.53, Y.56, Q.111, E.113 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.22, B:M.49, B:G.53, B:E.113 pi-Cation interactions: A:R.22 pi-Stacking: B:Y.56

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: L.54, S.57, D.61, K.64 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.64 GOL.5: 4 residues within 4Å: Chain B: L.54, S.57, D.61, K.64 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.61, B:K.64

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

DMS.3: 4 residues within 4Å: Chain A: D.73, E.75, I.76, Y.109 3 PLIP interactions: 3 interactions with chain A Water bridges: A:Y.109 Salt bridges: A:D.73, A:E.75 DMS.6: 4 residues within 4Å: Chain B: D.73, E.75, I.76, Y.109 3 PLIP interactions: 3 interactions with chain B Water bridges: B:Y.109 Salt bridges: B:D.73, B:E.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pearce, A.C. et al., GSK137, a potent small-molecule BCL6 inhibitor with in vivo activity, suppresses antibody responses in mice. J.Biol.Chem. (2021)

Release Date

2021-07-28

Peptides

Isoform 2 of B-cell lymphoma 6 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Isoform 2 of B-cell lymphoma 6 protein