SMTL ID : 9hl7.2 (1 other biounit)

Protein Kinase CK2 and small molecule ligands

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.28 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: K.99, R.102, R.177, N.211 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.211 Salt bridges: A:K.99, A:R.102, A:R.177 SO4.4: 1 residues within 4Å: Chain A: R.69 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.69 SO4.5: 3 residues within 4Å: Chain A: K.251, H.256, R.266 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.251, A:R.266 SO4.6: 1 residues within 4Å: Chain A: W.55 No protein-ligand interaction detected (PLIP) SO4.7: 4 residues within 4Å: Chain A: R.213, A.215, K.220, N.260 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.260, A:N.260 Salt bridges: A:R.213, A:K.220 SO4.8: 4 residues within 4Å: Chain A: R.297, H.298, S.299, K.301 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.299 Salt bridges: A:H.298, A:K.301 SO4.9: 3 residues within 4Å: Chain A: R.300, R.302, R.305 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.302 Salt bridges: A:R.302, A:R.305

2 x 01: 2-(6-chloranyl-1~{H}-indol-3-yl)ethanoic acid

01.2: 7 residues within 4Å: Chain A: V.75, K.90, I.117, F.135, V.138, I.196, D.197 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:K.90, A:I.117, A:I.117 Hydrogen bonds: A:D.197, A:W.198 Salt bridges: A:K.90 Halogen bonds: A:V.138 01.3: 9 residues within 4Å: Chain A: Q.58, Y.61, L.63, V.89, V.123, D.125, P.126, V.127, A.132 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.63, A:P.126, A:V.127 Hydrogen bonds: A:Q.58

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.10: 4 residues within 4Å: Chain A: R.41, Y.168, S.171, M.172 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.171 DMS.11: 4 residues within 4Å: Chain A: E.209, Y.210, N.211, Q.229 No protein-ligand interaction detected (PLIP) DMS.12: 7 residues within 4Å: Chain A: D.152, R.156, Q.312, H.313, L.314, V.315, S.316 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Grenier, D. et al., Binding-Site Switch for Protein Kinase CK2 Inhibitors. Chemmedchem (2025)

Release Date

2025-07-30

Peptides

Casein kinase II subunit alpha: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Casein kinase II subunit alpha

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