SMTL ID : 5dsx.2 (1 other biounit)

Crystal structure of Dot1L in complex with inhibitor CPD10 [6'-chloro-1,4-dimethyl-5'-(2-methyl-6-((4-(methylamino)pyrimidin-2-yl)amino)-1H-indol-1-yl)-[3,3'-bipyridin]-2(1H)-one]

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

monomer

Ligands

1 x K: POTASSIUM ION(Non-covalent)

K.1: 4 residues within 4Å: Chain A: K.53, L.54, M.56, N.58 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:K.53, A:M.56, H2O.3, H2O.4

1 x 5EW: 6'-chloro-1,4-dimethyl-5'-(2-methyl-6-{[4-(methylamino)pyrimidin-2-yl]amino}-1H-indol-1-yl)-3,3'-bipyridin-2(1H)-one(Non-covalent)

5EW.2: 19 residues within 4Å: Chain A: F.132, S.141, L.144, V.145, M.148, D.162, G.164, S.165, V.170, F.240, V.241, N.242, F.244, V.268, S.269, S.270, V.311, S.312, Y.313 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:F.132, A:L.144, A:F.240, A:N.242, A:V.311, A:Y.313 Hydrogen bonds: A:D.162, A:N.242 Water bridges: A:F.132, A:F.132, A:S.141, A:G.168, A:N.242 pi-Stacking: A:F.132, A:F.132, A:F.244 Halogen bonds: A:S.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, C. et al., Discovery of Novel Dot1L Inhibitors through a Structure-Based Fragmentation Approach. Acs Med.Chem.Lett. (2016)

Release Date

2016-06-15

Peptides

Histone-lysine N-methyltransferase, H3 lysine-79 specific: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Histone-lysine N-methyltransferase, H3 lysine-79 specific

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