SMTL ID : 3sr4.1

Crystal Structure of Human DOT1L in Complex with a Selective Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

monomer

Ligands

1 x TT8: (2S)-2-azanyl-4-[[(2S,3S,4R,5R)-5-[6-(methylamino)purin-9-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanyl]butanoic acid(Non-covalent)

TT8.1: 22 residues within 4Å: Chain A: P.133, V.135, Y.136, G.137, E.138, T.139, D.161, G.163, S.164, G.165, Q.168, V.169, E.186, K.187, A.188, G.221, D.222, F.223, L.224, F.239, N.241, F.245 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:T.139, A:G.163, A:Q.168, A:K.187, A:D.222, A:F.223, A:N.241 Water bridges: A:E.134, A:Y.136, A:S.164 pi-Stacking: A:F.223

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: H.31, D.32, H.35, E.36, N.116 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.32, A:D.32 Water bridges: A:H.109, A:N.116

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 4 residues within 4Å: Chain A: V.160, Y.183, R.231, T.235 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.231

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: R.203, K.207, H.213 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.203, A:K.207, A:H.213

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yao, Y. et al., Selective Inhibitors of Histone Methyltransferase DOT1L: Design, Synthesis, and Crystallographic Studies. J.Am.Chem.Soc. (2011)

Release Date

2011-10-05

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

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