SMTL ID : 4bpk.1

Bcl-xL bound to alpha beta Puma BH3 peptide 5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.76 Å

Oligo State

hetero-2-2-mer

Ligands

15 x CD: CADMIUM ION(Non-covalent)

CD.1: 2 residues within 4Å: Chain A: E.77 Chain C: A.8 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.77, H2O.3 CD.2: 2 residues within 4Å: Chain A: S.22, E.40 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.40, H2O.1, H2O.2, H2O.2 CD.3: 1 residues within 4Å: Chain A: H.61 No protein-ligand interaction detected (PLIP) CD.4: 1 residues within 4Å: Chain A: E.101 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.101, A:E.101, H2O.2, H2O.3, H2O.3 CD.5: 1 residues within 4Å: Chain A: H.125 No protein-ligand interaction detected (PLIP) CD.6: 1 residues within 4Å: Chain A: E.127 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.127, A:E.127, H2O.3, H2O.3 CD.8: 2 residues within 4Å: Chain B: G.134, D.137 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:G.134, B:D.137, B:D.137, H2O.6 CD.9: 1 residues within 4Å: Chain B: D.124 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.124, B:D.124, H2O.5, H2O.6, H2O.6 CD.10: 1 residues within 4Å: Chain B: H.125 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.125, H2O.5, H2O.5, H2O.5 CD.11: 2 residues within 4Å: Chain B: Q.36, E.40 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.40, H2O.4, H2O.4, H2O.6 CD.12: 4 residues within 4Å: Chain B: E.77 Chain D: R.4, E.5, A.8 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.77 CD.13: 3 residues within 4Å: Chain B: E.101, D.104, K.105 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.101, B:D.104, H2O.5, H2O.5 CD.14: 1 residues within 4Å: Chain B: H.61 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.61 CD.15: 1 residues within 4Å: Chain B: H.61 No protein-ligand interaction detected (PLIP) CD.16: 1 residues within 4Å: Chain B: E.106 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.106, B:E.106, H2O.6

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

EDO.7: 6 residues within 4Å: Chain A: S.18, S.22, Q.36, R.39 Chain B: D.15, R.39 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:R.39, B:R.39, A:S.18, A:S.22, A:R.39 Water bridges: A:K.35, A:R.39 EDO.17: 2 residues within 4Å: Chain B: V.83, N.84 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Smith, B.J. et al., Structure-Guided Rational Design of Alpha/Beta-Peptide Foldamers with High Affinity for Bcl-2 Family Prosurvival Proteins. Chembiochem (2013)

Release Date

2014-04-09

Peptides

BCL-2-LIKE PROTEIN 1: AB
ALPHA BETA BH3-PEPTIDE: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

BCL-2-LIKE PROTEIN 1

ALPHA BETA BH3-PEPTIDE