SMTL ID : 5n9k.1

Crystal structure of human Protein kinase CK2 catalytic subunit in complex with the ATP-competitive, tight-binding dibenzofuran inhibitor TF107 (5)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

monomer

Ligands

1 x 8QK: 1,3-bis(chloranyl)-6-[(~{E})-(4-methoxyphenyl)iminomethyl]dibenzofuran-2,7-diol(Non-covalent)

8QK.1: 16 residues within 4Å: Chain A: R.43, L.45, V.53, V.66, K.68, I.95, F.113, E.114, H.115, V.116, N.118, M.163, I.174, D.175 Ligands: ACT.6, GOL.8 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.45, A:V.53, A:I.95, A:I.174 Hydrogen bonds: A:R.43, A:K.68, A:V.116, A:D.175 Water bridges: A:E.81

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

ACT.2: 6 residues within 4Å: Chain A: Q.36, Y.39, I.69, D.103, P.104, A.110 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.39 Hydrogen bonds: A:Q.36, A:D.103 ACT.3: 1 residues within 4Å: Chain A: N.62 No protein-ligand interaction detected (PLIP) ACT.4: 5 residues within 4Å: Chain A: G.90, G.91, N.93, I.94, R.172 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.93 Water bridges: A:R.172 Salt bridges: A:R.172 ACT.5: 4 residues within 4Å: Chain A: R.80, R.155, L.178, N.189 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:N.189 Water bridges: A:R.155 Salt bridges: A:R.80, A:R.155 ACT.6: 2 residues within 4Å: Ligands: 8QK.1, GOL.8 No protein-ligand interaction detected (PLIP) ACT.7: 3 residues within 4Å: Chain A: Y.138, R.316, M.319 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.138 Salt bridges: A:R.316

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 8 residues within 4Å: Chain A: G.46, R.47, G.48, S.51, V.53, D.175 Ligands: 8QK.1, ACT.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.46 Water bridges: A:S.51, A:S.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schnitzler, A. et al., A pi-Halogen Bond of Dibenzofuranones with the Gatekeeper Phe113 in Human Protein Kinase CK2 Leads to Potent Tight Binding Inhibitors. Pharmaceuticals (2018)

Release Date

2018-02-28

Peptides

Casein kinase II subunit alpha: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Casein kinase II subunit alpha

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