SMTL ID : 5lay.1 (5 other biounits)

Discovery of New Natural-product-inspired Spiro-oxindole Compounds as Orally Active Inhibitors of the MDM2-p53 Interaction: HDM2 (MDM2) IN COMPLEX WITH COMPOUND 6g

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.71 Å

Oligo State

monomer

Ligands

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 4 residues within 4Å: Chain A: K.54, Q.55, Q.56, H.57 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.56, A:H.57, A:H.57 GOL.2: 3 residues within 4Å: Chain A: P.4, A.5, S.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.5, A:S.6, A:S.6, A:S.6 GOL.3: 3 residues within 4Å: Chain A: K.29, T.31, E.36 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.31, A:E.36

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

SO4.4: 5 residues within 4Å: Chain A: S.1, Q.2, I.3, Q.8, H.80 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.2, A:I.3, A:I.3, A:Q.8 Salt bridges: A:H.80

1 x 6SS: (3~{S},3'~{S},4'~{S},5'~{S})-4'-azanyl-6-chloranyl-3'-(3-chloranyl-2-fluoranyl-phenyl)-1'-[(3-ethoxyphenyl)methyl]-5'-methyl-spiro[1~{H}-indole-3,2'-pyrrolidine]-2-one(Non-covalent)

6SS.5: 13 residues within 4Å: Chain A: L.38, L.41, G.42, I.45, M.46, Y.51, Q.56, F.70, F.75, V.77, H.80, I.83, Y.84 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.41, A:I.45, A:I.45, A:Y.51, A:F.75, A:I.83 Hydrogen bonds: A:L.38 pi-Stacking: A:H.80 Halogen bonds: A:H.80

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gollner, A. et al., Discovery of Novel Spiro[3H-indole-3,2'-pyrrolidin]-2(1H)-one Compounds as Chemically Stable and Orally Active Inhibitors of the MDM2-p53 Interaction. J. Med. Chem. (2016)

Release Date

2016-11-02

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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