SMTL ID : 5osl.1

The crystal structure of CK2alpha in complex with compound 7

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

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

ACT.1: 7 residues within 4Å: Chain A: Q.35, Y.38, V.66, V.100, D.102, P.103, A.109 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.38, A:V.100 Hydrogen bonds: A:D.102 ACT.2: 4 residues within 4Å: Chain A: K.76, R.79, R.154, N.188 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:N.188 Water bridges: A:R.154, A:N.188 Salt bridges: A:R.79, A:R.154

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

ADP.3: 15 residues within 4Å: Chain A: S.50, V.52, V.65, K.67, I.94, F.112, E.113, V.115, H.159, N.160, M.162, I.173, D.174 Ligands: MG.4, MG.5 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.50, A:E.113, A:V.115, A:D.174 Water bridges: A:G.47, A:Y.49, A:K.67, A:H.159, A:N.160, A:N.160 Salt bridges: A:K.67, A:K.67

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain A: D.174 Ligands: ADP.3, MG.5 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.174, A:D.174, H2O.3, H2O.8 MG.5: 4 residues within 4Å: Chain A: N.160, D.174 Ligands: ADP.3, MG.4 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.174, H2O.4, H2O.5

2 x A9K: 2-[4-(aminomethyl)-2-chloranyl-phenyl]phenol(Non-covalent)

A9K.6: 12 residues within 4Å: Chain A: N.117, T.118, F.120, L.123, Y.124, L.127, M.136, P.158, V.161, I.163, M.220, M.224 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.120, A:L.123, A:V.161, A:I.163, A:M.224 Hydrogen bonds: A:N.117, A:N.117 Water bridges: A:F.120 A9K.7: 6 residues within 4Å: Chain A: E.51, I.68, K.70, P.71, V.104, S.105 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.68, A:P.71, A:V.104 Water bridges: A:R.46, A:K.70 Halogen bonds: A:I.68

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.8: 2 residues within 4Å: Chain A: K.157, H.159 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.157, A:K.157 Salt bridges: A:K.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Iegre, J. et al., Second-generation CK2 alpha inhibitors targeting the alpha D pocket. Chem Sci (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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