SMTL ID : 7mrc.2 (1 other biounit)

Crystal structure of the first bromodomain (BD1) of human BRDT bound to GXH-II-052

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

monomer

Ligands

1 x ZMS: N,N'-{oxybis[(ethane-2,1-diyl)oxy(1-oxoethane-2,1-diyl)piperidine-1,4-diyl]}bis{4-[(4-{4-chloro-3-[(2-methylpropane-2-sulfonyl)amino]anilino}-5-methylpyrimidin-2-yl)amino]-2-fluorobenzamide}(Non-covalent)

ZMS.1: 14 residues within 4Å: Chain A: W.26, P.27, F.28, V.32, V.35, K.36, L.37, Q.38, L.39, Y.42, N.85, D.90, I.91, M.94 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:W.26, A:W.26, A:P.27, A:P.27, A:F.28, A:V.32, A:L.37, A:L.37, A:Q.38, A:L.39, A:D.90, A:I.91, A:I.91 Hydrogen bonds: A:P.27, A:L.37, A:Q.38, A:N.85, A:N.85 Water bridges: A:I.91

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

EDO.2: 3 residues within 4Å: Chain A: Q.104, K.105, Q.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.104 EDO.3: 6 residues within 4Å: Chain A: A.34, V.35, L.39, P.40, D.41, Y.42 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.41, A:Y.42

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

DMS.4: 4 residues within 4Å: Chain A: L.16, K.17, W.20, K.56 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:W.20

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guan, X. et al., Bivalent BET Bromodomain Inhibitors Confer Increased Potency and Selectivity for BRDT via Protein Conformational Plasticity. J.Med.Chem. (2022)

Release Date

2022-05-18

Peptides

Bromodomain testis-specific protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Bromodomain testis-specific protein

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