SMTL ID : 9d5z.1 (1 other biounit)

Crystal structure of the human WDR5 in complex with LH168 compound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x 01: (3P)-N-[(2S)-1-(6,7-dihydrothieno[3,2-c]pyridin-5(4H)-yl)-1-oxopentan-2-yl]-3-[1-ethyl-3-(trifluoromethyl)-1H-pyrazol-4-yl]-5-[(1H-imidazol-1-yl)methyl]benzamide

01.1: 23 residues within 4Å: Chain A: A.25, V.26, S.27, A.43, G.67, I.68, S.69, D.85, F.111, F.127, S.153, S.168, Y.169, P.194, V.195, S.196, L.212, K.237, Y.238, C.239, F.241, I.283, L.299 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.169, A:L.212, A:K.237, A:Y.238, A:I.283, A:I.283 Hydrogen bonds: A:C.239 pi-Stacking: A:F.111, A:F.111, A:Y.169, A:F.241 Halogen bonds: A:A.25

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

EDO.2: 5 residues within 4Å: Chain A: Y.206, L.218, L.227, K.228, Q.267 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.206, A:Q.267 Water bridges: A:Y.206, A:Y.206 EDO.3: 4 residues within 4Å: Chain A: V.9, G.249, K.250, W.251 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.250 Water bridges: A:K.250

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kimani, S. et al., Crystal structure of the human WDR5 in complex with LH168 compound. To be published

Release Date

2025-02-19

Peptides

WD repeat-containing protein 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

WD repeat-containing protein 5

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