SMTL ID : 7rux.1

Crystal structure of the BCL6 BTB domain in complex with OICR-8311

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

homo-dimer

Ligands

2 x 7RW: N-(3-chloropyridin-4-yl)-2-(3-(cyclopropylmethyl)-4-oxo-3,4-dihydro-7H-pyrrolo[2,3-d]pyrimidin-7-yl)acetamide(Non-covalent)

7RW.1: 16 residues within 4Å: Chain A: M.49, A.50, C.51, S.52, G.53, Y.56, S.57, Q.111, M.112, E.113, H.114 Chain B: N.19, R.22, L.23, R.26 Ligands: FMT.3 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.56, A:Y.56, A:Y.56 Hydrogen bonds: A:M.49, A:E.113, B:N.19 Water bridges: A:Q.111, A:H.114 7RW.5: 16 residues within 4Å: Chain A: N.19, R.22, L.23, R.26 Chain B: M.49, A.50, C.51, S.52, G.53, Y.56, S.57, Q.111, M.112, E.113, H.114 Ligands: FMT.7 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Y.56, B:Y.56, B:Y.56 Hydrogen bonds: B:M.49, B:E.113, A:N.19 Water bridges: B:Q.111, B:H.114

6 x FMT: FORMIC ACID(Non-functional Binders)

FMT.2: 6 residues within 4Å: Chain A: F.9, H.12 Chain B: F.87, H.114, V.115 Ligands: FMT.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.12 Water bridges: A:D.15 FMT.3: 8 residues within 4Å: Chain A: A.50, C.51 Chain B: H.12, D.15, V.16, N.19 Ligands: 7RW.1, FMT.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.12, B:D.15 Water bridges: B:N.19 FMT.4: 5 residues within 4Å: Chain A: I.7, Q.8, F.9 Chain B: H.114, T.118 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.8 FMT.6: 6 residues within 4Å: Chain A: F.87, H.114, V.115 Chain B: F.9, H.12 Ligands: FMT.3 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Water bridges: A:H.114 Hydrogen bonds: B:H.12 FMT.7: 8 residues within 4Å: Chain A: H.12, D.15, V.16, N.19 Chain B: A.50, C.51 Ligands: FMT.2, 7RW.5 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.12, A:D.15, A:D.15 Water bridges: A:N.19 FMT.8: 5 residues within 4Å: Chain A: H.114, T.118 Chain B: I.7, Q.8, F.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watson, I. et al., Crystal structure of the BCL6 BTB domain in complex with OICR-8311. To Be Published

Release Date

2022-11-09

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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