SMTL ID : 6i3s.1

Crystal structure of MDM2 in complex with compound 13.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

monomer

Ligands

1 x H28: (3~{S},3'~{R},3'~{a}~{S},6'~{a}~{R})-6-chloranyl-3'-(3-chloranyl-2-fluoranyl-phenyl)-1'-(cyclopropylmethyl)spiro[1~{H}-indole-3,2'-3~{a},6~{a}-dihydro-3~{H}-pyrrolo[3,4-b]pyrrole]-2,4'-dione(Non-covalent)

H28.1: 14 residues within 4Å: Chain A: L.37, L.40, G.41, I.44, M.45, Y.50, V.58, F.69, F.74, V.76, H.79, I.82, Y.83 Ligands: GOL.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.37, A:L.40, A:I.44, A:I.44, A:Y.50, A:V.58, A:F.74, A:V.76, A:I.82 Hydrogen bonds: A:L.37, A:G.41 pi-Stacking: A:H.79 Halogen bonds: A:H.79

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: I.2, Q.7, H.79, Y.83 Ligands: H28.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.7, A:H.79, A:Y.83

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

SO4.3: 4 residues within 4Å: Chain A: E.78, H.79, R.80, K.81 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.80, A:K.81 Salt bridges: A:R.80 SO4.4: 1 residues within 4Å: Chain A: K.34 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.34

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gollner, A. et al., Targeted Synthesis of Complex Spiro[3H-indole-3,2'-pyrrolidin]-2(1H)-ones by Intramolecular Cyclization of Azomethine Ylides: Highly Potent MDM2-p53 Inhibitors. ChemMedChem (2019)

Release Date

2018-12-19

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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