SMTL ID : 3spf.1

Crystal Structure of Bcl-xL bound to BM501

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x B50: 4-(4-chlorophenyl)-1-[(3S)-3,4-dihydroxybutyl]-N-[3-(4-methylpiperazin-1-yl)propyl]-3-phenyl-1H-pyrrole-2-carboxamide(Non-covalent)

B50.1: 11 residues within 4Å: Chain A: F.60, Y.64, F.68, L.71, V.89, E.92, L.93, A.105, F.109, A.112 Ligands: GOL.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.60, A:F.60, A:L.71, A:L.93, A:A.105, A:F.109 Hydrogen bonds: A:E.92 pi-Stacking: A:Y.64

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: L.20, W.27, S.28, V.118, Q.123, V.126 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.27, A:S.28 GOL.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) GOL.4: 8 residues within 4Å: Chain A: A.56, E.59, F.60, R.63, Y.64, G.101, V.104, Y.158 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.60, A:R.63, A:R.63 GOL.5: 4 residues within 4Å: Chain A: E.92, L.93, R.102 Ligands: B50.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.92, A:E.92, A:R.102

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, H. et al., Design of Bcl-2 and Bcl-xL Inhibitors with Subnanomolar Binding Affinities Based upon a New Scaffold. J.Med.Chem. (2012)

Release Date

2012-06-27

Peptides

Bcl-2-like protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bcl-2-like protein 1

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