SMTL ID : 8ie8.1

Crystal structure of DAPK1 in complex with isorhapontigenin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

monomer

Ligands

1 x P5O: 5-[(~{E})-2-(3-methoxy-4-oxidanyl-phenyl)ethenyl]benzene-1,3-diol(Non-covalent)

P5O.1: 12 residues within 4Å: Chain A: L.19, G.20, S.21, V.27, A.40, I.77, L.93, E.94, L.95, V.96, E.100, I.160 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.27, A:A.40, A:I.77 Hydrogen bonds: A:S.21, A:V.96, A:V.96, A:E.100 Water bridges: A:D.161

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

SO4.2: 3 residues within 4Å: Chain A: F.236, K.249, R.253 3 PLIP interactions: 3 interactions with chain A Water bridges: A:F.236 Salt bridges: A:K.249, A:R.253 SO4.3: 7 residues within 4Å: Chain A: I.177, F.178, V.184, I.188, V.189, Y.191, L.226 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.188 Water bridges: A:I.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yokoyama, T. et al., Characterization of the molecular interactions between resveratrol derivatives and death-associated protein kinase 1. Febs J. (2023)

Release Date

2023-05-24

Peptides

Death-associated protein kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Death-associated protein kinase 1

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