SMTL ID : 7wn5.1

Crystal Structure of the second bromodomain of human BRD2 in complex with the inhibitor Y13142

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x JGL: ~{N}-[4-[2,4-bis(fluoranyl)phenoxy]-3-[2-(1~{H}-imidazol-5-yl)-5-methyl-4-oxidanylidene-furo[3,2-c]pyridin-7-yl]phenyl]ethanesulfonamide(Non-covalent)

JGL.1: 15 residues within 4Å: Chain A: W.51, P.52, F.53, K.55, P.56, V.57, D.58, L.62, L.64, C.106, N.110, H.114, D.115, V.116, M.119 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.51, A:W.51, A:W.51, A:P.52, A:K.55, A:L.62, A:L.64, A:V.116 Hydrogen bonds: A:D.58, A:N.110, A:N.110 JGL.4: 15 residues within 4Å: Chain B: W.51, P.52, F.53, K.55, P.56, V.57, D.58, L.62, L.64, C.106, N.110, H.114, D.115, V.116, M.119 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:W.51, B:W.51, B:W.51, B:P.52, B:K.55, B:L.62, B:L.64, B:V.116 Hydrogen bonds: B:D.58, B:N.110, B:N.110

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 1 residues within 4Å: Chain A: L.42 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Y.54 EDO.5: 3 residues within 4Å: Chain B: Y.49, M.119, K.122 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.122 EDO.6: 3 residues within 4Å: Chain B: K.83, D.88, E.94 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.83, B:K.83, B:E.94 EDO.7: 3 residues within 4Å: Chain A: S.104 Chain B: Y.131, M.134 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.131 EDO.8: 2 residues within 4Å: Chain B: L.42, Y.54 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.42

1 x K: POTASSIUM ION(Non-covalent)

K.3: 2 residues within 4Å: Chain A: R.100 Chain B: R.100 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, J. et al., Structure-Based Discovery and Optimization of Furo[3,2- c ]pyridin-4(5 H )-one Derivatives as Potent and Second Bromodomain (BD2)-Selective Bromo and Extra Terminal Domain (BET) Inhibitors. J.Med.Chem. (2022)

Release Date

2022-08-10

Peptides

Isoform 4 of Bromodomain-containing protein 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Isoform 4 of Bromodomain-containing protein 2

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