SMTL ID : 5oto.1

The crystal structure of CK2alpha in complex with compound 30

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.51 Å

Oligo State

homo-dimer

Ligands

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

ACT.1: 5 residues within 4Å: Chain A: R.103, R.178, L.201, N.212, R.214 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:N.212 Water bridges: A:R.178 Salt bridges: A:R.103, A:R.178 ACT.2: 5 residues within 4Å: Chain A: K.91, I.118, F.136, I.197, D.198 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.198 Water bridges: A:W.199, A:W.199 Salt bridges: A:K.91 ACT.5: 5 residues within 4Å: Chain B: K.91, I.118, F.136, I.197, D.198 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.136 Hydrogen bonds: B:D.198 Water bridges: B:E.104, B:W.199 Salt bridges: B:K.91 ACT.6: 6 residues within 4Å: Chain B: R.103, R.178, L.201, N.212, R.214, V.215 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:V.215 Water bridges: B:R.178 Salt bridges: B:R.103, B:R.178 ACT.7: 3 residues within 4Å: Chain B: R.306, F.307, H.309 2 PLIP interactions: 2 interactions with chain B Water bridges: B:H.309 Salt bridges: B:H.309 ACT.8: 3 residues within 4Å: Chain B: H.299, S.300, K.302 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.300 Water bridges: B:K.302 Salt bridges: B:H.299, B:K.302 ACT.9: 4 residues within 4Å: Chain B: L.225, L.226, N.261, Y.262 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:Y.262 Hydrogen bonds: B:N.261

2 x AQW: 2-(5-chloranyl-1~{H}-benzimidazol-2-yl)-~{N}-[[3-chloranyl-4-(2-ethylphenyl)phenyl]methyl]ethanamine(Non-covalent)

AQW.3: 12 residues within 4Å: Chain A: V.76, N.141, F.144, L.151, Y.159, I.163, P.182, H.183, V.185, I.187, M.244, M.248 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.144, A:L.151, A:Y.159, A:V.185, A:I.187, A:M.244, A:M.248 Hydrogen bonds: A:P.182 AQW.10: 12 residues within 4Å: Chain B: L.68, G.69, V.76, N.141, Y.159, I.163, P.182, H.183, V.185, I.187, M.244, M.248 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.159, B:Y.159, B:M.244, B:M.248 Hydrogen bonds: B:V.185 Water bridges: B:I.187

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

PO4.4: 4 residues within 4Å: Chain A: R.218, Y.219, H.257, G.258 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.219 Water bridges: A:R.218 Salt bridges: A:R.218, A:H.257, A:H.259 PO4.11: 5 residues within 4Å: Chain B: R.218, Y.219, H.257, G.258, H.259 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:Y.219, B:Y.219, B:Y.219 Water bridges: B:R.218, B:R.218, B:R.218 Salt bridges: B:R.218, B:H.257, B:H.259

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: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Casein kinase II subunit alpha

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