SMTL ID : 7biv.1

Inhibitor of MDM2-p53 Interaction

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

monomer

Ligands

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

DMS.1: 4 residues within 4Å: Chain A: A.59, Q.60, Q.61, H.62 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.61, A:H.62 Water bridges: A:K.83 DMS.2: 3 residues within 4Å: Chain A: K.34, D.35, T.36 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.35

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

EDO.3: 4 residues within 4Å: Chain A: Y.49, K.53, D.69, L.70 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.49, A:K.53, A:D.69, A:L.70

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

SO4.4: 1 residues within 4Å: Chain A: R.86 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.86 SO4.5: 4 residues within 4Å: Chain A: L.16, V.17, R.18, T.36 1 PLIP interactions: 1 interactions with chain A Water bridges: A:L.16

1 x TUW: 6-[[(1~{R})-1-(4-chlorophenyl)-7-fluoranyl-1-[[1-(hydroxymethyl)cyclopropyl]methoxy]-3-oxidanylidene-5-(2-oxidanylpropan-2-yl)isoindol-2-yl]methyl]pyridine-3-carbonitrile(Non-covalent)

TUW.6: 17 residues within 4Å: Chain A: L.43, F.44, L.46, G.47, Q.48, I.50, M.51, Y.56, Q.61, H.62, I.63, V.64, F.80, V.82, H.85, I.88, Y.89 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.46, A:I.50, A:I.50, A:V.82 Water bridges: A:L.43 Halogen bonds: A:G.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chessari, G. et al., Structure-Based Design of Potent and Orally Active Isoindolinone Inhibitors of MDM2-p53 Protein-Protein Interaction. J.Med.Chem. (2021)

Release Date

2021-04-07

Peptides

E3 ubiquitin-protein ligase Mdm2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E3 ubiquitin-protein ligase Mdm2

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