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

Crystal structure of human EED

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

1 x XB7: 1-[(4-fluorophenyl)methyl]-N-{1-[2-(4-methoxyphenyl)ethyl]piperidin-4-yl}-1H-benzimidazol-2-amine(Non-covalent)

XB7.1: 16 residues within 4Å: Chain A: L.207, L.276, G.277, L.279, C.291, M.297, L.314, F.317, F.333, W.334, Q.335, L.352, V.354, E.355, P.357, H.358 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.276, A:L.276, A:L.279, A:L.314, A:W.334, A:W.334, A:Q.335, A:P.357

25 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.2: 6 residues within 4Å: Chain A: D.204, Y.205, D.206, L.207, W.275 Ligands: UNX.23 Ligand excluded by PLIP UNX.3: 7 residues within 4Å: Chain A: Q.61, T.110, C.111, A.112, E.156, L.157, K.158 Ligand excluded by PLIP UNX.4: 5 residues within 4Å: Chain A: H.150, D.173, A.175, R.177, I.189 Ligand excluded by PLIP UNX.5: 3 residues within 4Å: Chain A: F.250, I.251 Ligands: UNX.15 Ligand excluded by PLIP UNX.6: 2 residues within 4Å: Chain A: N.165, I.181 Ligand excluded by PLIP UNX.7: 2 residues within 4Å: Chain A: Y.109, W.325 Ligand excluded by PLIP UNX.8: 3 residues within 4Å: Chain A: K.172, E.199, W.325 Ligand excluded by PLIP UNX.9: 3 residues within 4Å: Chain A: K.50, S.394, W.396 Ligand excluded by PLIP UNX.10: 5 residues within 4Å: Chain A: Q.61, W.64, S.378 Ligands: UNX.11, UNX.12 Ligand excluded by PLIP UNX.11: 6 residues within 4Å: Chain A: W.64, S.330, M.331, S.378, F.379 Ligands: UNX.10 Ligand excluded by PLIP UNX.12: 4 residues within 4Å: Chain A: Q.61, F.62, W.64 Ligands: UNX.10 Ligand excluded by PLIP UNX.13: 3 residues within 4Å: Chain A: D.103, I.132, R.134 Ligand excluded by PLIP UNX.14: 1 residues within 4Å: Chain A: P.138 Ligand excluded by PLIP UNX.15: 6 residues within 4Å: Chain A: E.237, F.250, I.251, Q.253 Ligands: UNX.5, UNX.22 Ligand excluded by PLIP UNX.16: 1 residues within 4Å: Chain A: K.254 Ligand excluded by PLIP UNX.17: 3 residues within 4Å: Chain A: I.324, W.325 Ligands: UNX.19 Ligand excluded by PLIP UNX.18: 3 residues within 4Å: Chain A: A.372, A.373, D.391 Ligand excluded by PLIP UNX.19: 3 residues within 4Å: Chain A: Y.269, D.323 Ligands: UNX.17 Ligand excluded by PLIP UNX.20: 1 residues within 4Å: Chain A: N.268 Ligand excluded by PLIP UNX.21: 4 residues within 4Å: Chain A: T.262, D.264, S.309, V.311 Ligand excluded by PLIP UNX.22: 7 residues within 4Å: Chain A: V.187, A.234, F.250, I.251, S.252, Q.253 Ligands: UNX.15 Ligand excluded by PLIP UNX.23: 4 residues within 4Å: Chain A: D.204, W.275, Q.335 Ligands: UNX.2 Ligand excluded by PLIP UNX.24: 2 residues within 4Å: Chain A: N.47, S.48 Ligand excluded by PLIP UNX.25: 3 residues within 4Å: Chain A: K.296, M.297, E.298 Ligand excluded by PLIP UNX.26: 1 residues within 4Å: Chain A: R.316 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Du, D. et al., Structure-Guided Development of Small-Molecule PRC2 Inhibitors Targeting EZH2-EED Interaction. J.Med.Chem. (2021)

Release Date

2021-02-24

Peptides

Polycomb protein EED: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Polycomb protein EED

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