SMTL ID : 5n9l.1

Crystal structure of human Protein kinase CK2 catalytic subunit in complex with the ATP-competitive dibenzofuran inhibitor TF (4b)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

monomer

Ligands

1 x 8QH: (4~{Z})-6,7-bis(chloranyl)-4-[[(4-methylphenyl)amino]methylidene]-8-oxidanyl-1,2-dihydrodibenzofuran-3-one(Non-covalent)

8QH.1: 12 residues within 4Å: Chain A: R.47, G.48, S.51, V.53, V.66, K.68, F.113, H.115, V.116, M.163, I.174, D.175 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.53, A:V.66, A:V.66, A:F.113, A:F.113, A:I.174, A:I.174, A:I.174 Hydrogen bonds: A:K.68, A:V.116, A:D.175 Water bridges: A:E.81

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

ACT.2: 6 residues within 4Å: Chain A: R.80, R.155, L.178, N.189, R.191, V.192 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:N.189, A:V.192 Water bridges: A:R.155, A:N.189 Salt bridges: A:K.77, A:R.80, A:R.155 ACT.3: 4 residues within 4Å: Chain A: D.156, K.158, A.193, S.194 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.158

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: G.90, G.91, P.92, N.93, I.94, T.96, R.172 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.90, A:N.93, A:N.93, A:I.94 Water bridges: A:R.172 GOL.5: 6 residues within 4Å: Chain A: E.32, E.86, R.89, L.97, D.99, I.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.89, A:R.89 GOL.6: 5 residues within 4Å: Chain A: R.10, Q.310, S.311, R.312, E.317 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.311, A:R.312 Water bridges: A:R.312 GOL.7: 7 residues within 4Å: Chain A: Q.36, Y.39, V.67, I.69, D.103, P.104, A.110 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.39, A:D.103, A:D.103 Water bridges: A:L.41

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

Related Entries With Identical Sequence