SMTL ID : 7rv8.1

Crystal structure of the BCL6 BTB domain in complex with OICR-10268

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

homo-dimer

Ligands

2 x 7ST: N-[5-chloro-2-(morpholin-4-yl)pyridin-4-yl]-2-{5-(3-cyano-4-hydroxy-5-methylphenyl)-3-[3-(1-methyl-1H-pyrazol-4-yl)prop-2-yn-1-yl]-4-oxo-3,4-dihydro-7H-pyrrolo[2,3-d]pyrimidin-7-yl}acetamide(Non-covalent)

7ST.1: 21 residues within 4Å: Chain A: M.49, A.50, C.51, S.52, G.53, Y.56, F.87, M.108, Q.111, M.112, E.113, H.114, V.115, V.116 Chain B: F.9, H.12, D.15, V.16, N.19, R.22, L.23 10 PLIP interactions: 2 interactions with chain B, 8 interactions with chain A Hydrophobic interactions: B:D.15, A:Y.56, A:Q.111, A:E.113 Hydrogen bonds: B:H.12, A:M.49, A:E.113, A:H.114, A:V.115 Water bridges: A:Y.56 7ST.3: 21 residues within 4Å: Chain A: F.9, H.12, D.15, V.16, N.19, R.22, L.23 Chain B: M.49, A.50, C.51, S.52, G.53, Y.56, F.87, M.108, Q.111, M.112, E.113, H.114, V.115, V.116 11 PLIP interactions: 8 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:Y.56, B:Q.111, B:E.113, A:D.15 Hydrogen bonds: B:M.49, B:E.113, B:H.114, B:V.115, A:H.12 Water bridges: B:Y.56, A:D.15

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

DMS.2: 6 residues within 4Å: Chain A: I.7, Q.8, F.9, T.10 Chain B: T.118, K.121 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B pi-Cation interactions: A:F.9 Hydrogen bonds: B:T.118 DMS.4: 6 residues within 4Å: Chain A: T.118, K.121 Chain B: I.7, Q.8, F.9, T.10 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A pi-Cation interactions: B:F.9 Hydrogen bonds: A:T.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Watson, I. et al., Structure of the BCL6 BTB domain. To Be Published

Release Date

2022-08-24

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

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