SMTL ID : 3kj2.2 (1 other biounit)

Mcl-1 in complex with Bim BH3 mutant F4aE

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

hetero-4-4-mer

Ligands

16 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: E.71, D.72 Chain E: E.123 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain A Metal complexes: E:E.123, A:E.71, A:D.72 ZN.2: 3 residues within 4Å: Chain A: D.135 Chain C: H.83 Ligands: ACT.4 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: A:D.135, C:H.83, H2O.1 ZN.3: 2 residues within 4Å: Chain A: H.151, E.153 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.151, A:E.153, A:E.153, H2O.1 ZN.5: 3 residues within 4Å: Chain A: H.55 Chain B: E.16, E.17 5 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.55, B:E.16, B:E.16, B:E.17, H2O.3 ZN.6: 3 residues within 4Å: Chain C: E.71, D.72 Chain G: E.123 3 PLIP interactions: 1 interactions with chain G, 2 interactions with chain C Metal complexes: G:E.123, C:E.71, C:D.72 ZN.7: 3 residues within 4Å: Chain A: H.83 Chain C: D.135 Ligands: ACT.9 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:D.135, A:H.83, H2O.4 ZN.8: 2 residues within 4Å: Chain C: H.151, E.153 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.151, C:E.153, C:E.153, H2O.3 ZN.10: 3 residues within 4Å: Chain C: H.55 Chain D: E.16, E.17 5 PLIP interactions: 1 interactions with chain C, 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: C:H.55, D:E.16, D:E.16, D:E.17, H2O.5 ZN.11: 3 residues within 4Å: Chain A: E.123 Chain E: E.71, D.72 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain A Metal complexes: E:E.71, E:D.72, A:E.123 ZN.12: 3 residues within 4Å: Chain E: D.135 Chain G: H.83 Ligands: ACT.14 3 PLIP interactions: 1 interactions with chain G, 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: G:H.83, E:D.135, H2O.6 ZN.13: 2 residues within 4Å: Chain E: H.151, E.153 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:H.151, E:E.153, E:E.153, H2O.6 ZN.15: 3 residues within 4Å: Chain E: H.55 Chain F: E.16, E.17 5 PLIP interactions: 3 interactions with chain F, 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: F:E.16, F:E.16, F:E.17, E:H.55, H2O.8 ZN.16: 3 residues within 4Å: Chain C: E.123 Chain G: E.71, D.72 3 PLIP interactions: 2 interactions with chain G, 1 interactions with chain C Metal complexes: G:E.71, G:D.72, C:E.123 ZN.17: 3 residues within 4Å: Chain E: H.83 Chain G: D.135 Ligands: ACT.19 3 PLIP interactions: 1 interactions with chain E, 1 interactions with chain G, 1 Ligand-Water interactions Metal complexes: E:H.83, G:D.135, H2O.9 ZN.18: 2 residues within 4Å: Chain G: H.151, E.153 4 PLIP interactions: 3 interactions with chain G, 1 Ligand-Water interactions Metal complexes: G:H.151, G:E.153, G:E.153, H2O.8 ZN.20: 3 residues within 4Å: Chain G: H.55 Chain H: E.16, E.17 5 PLIP interactions: 3 interactions with chain H, 1 interactions with chain G, 1 Ligand-Water interactions Metal complexes: H:E.16, H:E.16, H:E.17, G:H.55, H2O.10

4 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 7 residues within 4Å: Chain A: D.135 Chain C: H.83 Chain D: I.4, A.7, Q.8, R.11 Ligands: ZN.2 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:A.7, D:Q.8 Hydrogen bonds: D:Q.8 Water bridges: D:R.11, D:R.11 Salt bridges: D:R.11, C:H.83 ACT.9: 7 residues within 4Å: Chain A: H.83 Chain B: I.4, A.7, Q.8, R.11 Chain C: D.135 Ligands: ZN.7 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:A.7, B:Q.8 Hydrogen bonds: B:Q.8 Water bridges: B:R.11, B:R.11 Salt bridges: B:R.11, A:H.83 ACT.14: 7 residues within 4Å: Chain E: D.135 Chain G: H.83 Chain H: I.4, A.7, Q.8, R.11 Ligands: ZN.12 7 PLIP interactions: 1 interactions with chain G, 6 interactions with chain H Salt bridges: G:H.83, H:R.11 Hydrophobic interactions: H:A.7, H:Q.8 Hydrogen bonds: H:Q.8 Water bridges: H:R.11, H:R.11 ACT.19: 7 residues within 4Å: Chain E: H.83 Chain F: I.4, A.7, Q.8, R.11 Chain G: D.135 Ligands: ZN.17 7 PLIP interactions: 1 interactions with chain E, 6 interactions with chain F Salt bridges: E:H.83, F:R.11 Hydrophobic interactions: F:A.7, F:Q.8 Hydrogen bonds: F:Q.8 Water bridges: F:R.11, F:R.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fire, E. et al., Mcl-1-Bim complexes accommodate surprising point mutations via minor structural changes. Protein Sci. (2010)

Release Date

2010-02-16

Peptides

Induced myeloid leukemia cell differentiation protein Mcl-1: ACEG
Bcl-2-like protein 11: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

E
A

G
A

B
B

D
B

F
B

H
B

Induced myeloid leukemia cell differentiation protein Mcl-1

Bcl-2-like protein 11

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