SMTL ID : 4rhw.1

Crystal structure of Apaf-1 CARD and caspase-9 CARD complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

hetero-4-2-mer

Ligands

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

SO4.1: 6 residues within 4Å: Chain A: K.21, T.22, S.23, R.44, Q.49, R.52 14 PLIP interactions: 10 interactions with chain A, 4 interactions with chain F Hydrogen bonds: A:T.22, A:S.23, A:S.23, A:S.23 Water bridges: A:I.20, A:K.21, A:T.22, F:R.45, F:R.45, F:R.45, F:R.45 Salt bridges: A:K.21, A:R.44, A:R.52 SO4.2: 4 residues within 4Å: Chain A: H.28, S.31 Chain C: H.77 Chain F: R.36 8 PLIP interactions: 2 interactions with chain A, 4 interactions with chain F, 2 interactions with chain C Hydrogen bonds: A:S.31 Salt bridges: A:H.28, F:R.36, C:H.77 Water bridges: F:R.36, F:R.36, F:R.36, C:H.77 SO4.3: 5 residues within 4Å: Chain B: K.21, T.22, S.23, Q.49, R.52 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.22, B:S.23 Water bridges: B:K.21, B:S.23 Salt bridges: B:K.21, B:R.52 SO4.4: 6 residues within 4Å: Chain B: T.48, Q.49, R.52 Chain D: T.48, Q.49, R.52 7 PLIP interactions: 3 interactions with chain D, 4 interactions with chain B Hydrogen bonds: D:Q.49, B:Q.49 Water bridges: D:T.48, B:T.48, B:Q.49 Salt bridges: D:R.52, B:R.52 SO4.6: 5 residues within 4Å: Chain C: K.21, T.22, S.23, Q.49, R.52 10 PLIP interactions: 6 interactions with chain C, 4 interactions with chain E Hydrogen bonds: C:T.22, C:S.23, C:S.23 Water bridges: C:K.21, E:R.45, E:R.45, E:R.45, E:R.45 Salt bridges: C:K.21, C:R.52 SO4.7: 4 residues within 4Å: Chain A: H.77 Chain C: H.28, S.31 Chain E: R.36 9 PLIP interactions: 1 interactions with chain A, 4 interactions with chain E, 4 interactions with chain C Salt bridges: A:H.77, E:R.36, C:H.28 Water bridges: E:R.36, E:R.36, E:R.36, C:H.28, C:H.28 Hydrogen bonds: C:S.31 SO4.8: 5 residues within 4Å: Chain D: K.21, T.22, S.23, Q.49, R.52 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:T.22, D:T.22, D:S.23, D:Q.49 Water bridges: D:T.22, D:S.23 Salt bridges: D:K.21, D:R.52

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain A: Q.50 Chain B: S.38 Ligand excluded by PLIP CL.9: 2 residues within 4Å: Chain D: T.36, S.38 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hu, Q. et al., Molecular determinants of caspase-9 activation by the Apaf-1 apoptosome. Proc. Natl. Acad. Sci. U.S.A. (2014)

Release Date

2014-10-15

Peptides

Apoptotic protease-activating factor 1: ABCD
Caspase-9: EF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Apoptotic protease-activating factor 1

Caspase-9

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