SMTL ID : 6ru8.2 (3 other biounits)

Crystal structure of Casein Kinase I delta (CK1d) in complex with triple phosphorylated p63 PAD3P peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.92 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 16 residues within 4Å: Chain A: I.17, G.18, S.19, G.20, I.25, A.38, K.40, E.54, Y.58, M.84, E.85, L.86, L.87, L.137, I.150, D.151 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:E.54, A:E.54, A:E.85, A:L.87, A:D.151, A:D.151 Water bridges: A:S.19, A:G.20, A:S.21, A:S.21, A:S.21 Salt bridges: A:K.40, A:K.40

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

EDO.2: 7 residues within 4Å: Chain A: E.119, H.122, S.123, Y.158, R.194, K.265, Y.268 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.119, A:R.194, A:R.194 EDO.3: 3 residues within 4Å: Chain A: K.173, N.174 Ligands: SO4.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.174, A:N.174 EDO.4: 2 residues within 4Å: Chain A: N.185, L.188 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.185 EDO.5: 4 residues within 4Å: Chain A: I.239, N.255, R.258, S.259 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.258

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 4 residues within 4Å: Chain A: N.145, Y.288, F.290, N.293 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.145, A:N.293 Water bridges: A:N.145

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

SO4.7: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.277 SO4.8: 5 residues within 4Å: Chain A: R.129, K.156, K.173, E.191 Ligands: EDO.3 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.129, A:E.191 Salt bridges: A:R.129, A:K.156, A:K.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gebel, J. et al., p63 uses a switch-like mechanism to set the threshold for induction of apoptosis. Nat.Chem.Biol. (2020)

Release Date

2020-05-13

Peptides

Casein kinase I isoform delta: A
Tumor protein 63: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
F

Casein kinase I isoform delta

Tumor protein 63

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