SMTL ID : 6uxn.2 (5 other biounits)

Crystal structure of BAK core domain BH3-groove-dimer in complex with phosphatidylserine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

homo-dimer

Ligands

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 3 residues within 4Å: Chain A: M.33 Chain B: Q.10, Q.14 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.10

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

SO4.2: 2 residues within 4Å: Chain A: Q.10, R.13 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.10 Salt bridges: A:R.13 SO4.5: 3 residues within 4Å: Chain B: T.7, G.9, R.13 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.9 Water bridges: B:R.13, B:R.13 Salt bridges: B:R.13

2 x 8SP: O-[(R)-{[(2R)-2,3-bis(octanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine(Non-covalent)

8SP.3: 11 residues within 4Å: Chain A: F.56, I.60, N.61, W.62, V.65, V.66, L.69 Chain B: L.69, Y.73, L.77 Ligands: 8SP.4 14 PLIP interactions: 7 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:F.56, A:I.60, A:V.65, A:V.65, A:V.66, A:L.69, B:L.69, B:Y.73, B:Y.73, B:Y.73 Hydrogen bonds: A:W.62, B:Y.73 Water bridges: B:N.23, B:R.74 8SP.4: 8 residues within 4Å: Chain B: A.44, Y.45, F.48, L.69, G.72, Y.73, L.75 Ligands: 8SP.3 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.48, B:F.48, B:L.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cowan, A.D. et al., BAK core dimers bind lipids and can be bridged by them. Nat.Struct.Mol.Biol. (2020)

Release Date

2020-09-02

Peptides

Bcl-2 homologous antagonist/killer: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Bcl-2 homologous antagonist/killer

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