SMTL ID : 2yq6.1

Structure of Bcl-xL bound to BimSAHB

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-2-2-mer

Ligands

14 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 2 residues within 4Å: Chain A: N.85 Chain B: D.11 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:N.14 Hydrogen bonds: A:N.85 GOL.2: 6 residues within 4Å: Chain A: N.85, W.86, W.130, N.134 Chain B: N.14, A.18 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.14, B:N.14, A:W.86 GOL.3: 8 residues within 4Å: Chain A: S.19, Y.20, S.23, Q.37, R.40 Chain C: D.16, R.40 Ligands: GOL.4 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:S.23, A:S.23, A:R.40, C:R.40, C:R.40 Water bridges: A:R.40, A:R.40 GOL.4: 8 residues within 4Å: Chain A: V.15, S.19, W.29, S.30, M.32, A.33, K.36 Ligands: GOL.3 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.19, A:W.29, A:S.30, A:S.30 Water bridges: A:D.16, A:K.36 GOL.5: 1 residues within 4Å: Chain A: D.125 No protein-ligand interaction detected (PLIP) GOL.6: 5 residues within 4Å: Chain A: Y.20, S.23, Q.24, Q.37, E.41 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.23, A:Q.37 GOL.7: 1 residues within 4Å: Chain B: L.12 No protein-ligand interaction detected (PLIP) GOL.8: 2 residues within 4Å: Chain C: N.85 Chain D: D.11 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:N.85 Water bridges: D:N.14 GOL.9: 6 residues within 4Å: Chain C: N.85, W.86, W.130, N.134 Chain D: N.14, A.18 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:W.86, D:N.14, D:N.14 GOL.10: 8 residues within 4Å: Chain A: D.16, R.40 Chain C: S.19, Y.20, S.23, Q.37, R.40 Ligands: GOL.11 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain C Hydrogen bonds: A:R.40, A:R.40, C:S.23, C:S.23, C:R.40 Water bridges: C:R.40, C:R.40 GOL.11: 8 residues within 4Å: Chain C: V.15, S.19, W.29, S.30, M.32, A.33, K.36 Ligands: GOL.10 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:S.19, C:W.29, C:S.30, C:S.30 Water bridges: A:D.16 GOL.12: 1 residues within 4Å: Chain C: D.125 No protein-ligand interaction detected (PLIP) GOL.13: 5 residues within 4Å: Chain C: Y.20, S.23, Q.24, Q.37, E.41 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.23, C:Q.37, C:E.41 GOL.14: 1 residues within 4Å: Chain D: L.12 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Okamoto, T. et al., Stabilizing the Pro-Apoptotic Bimbh3 Helix (Bimsahb) Does not Necessarily Enhance Affinity or Biological Activity. Acs Chem.Biol. (2013)

Release Date

2012-11-28

Peptides

BCL-2-LIKE PROTEIN 1: AC
BIM BETA 5: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

BCL-2-LIKE PROTEIN 1

BIM BETA 5

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