SMTL ID : 4kwp.1

Crystal Structure of Human CK2-alpha in complex with a benzimidazole inhibitor (K164) at 1.25 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

monomer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: L.249, D.253, R.278, R.306, Y.307, D.308, S.311 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.307, A:D.308 Water bridges: A:D.253, A:R.306, A:R.306 Salt bridges: A:R.278, A:R.306 SO4.2: 5 residues within 4Å: Chain A: K.77, R.80, R.155, N.189, V.192 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.189 Water bridges: A:R.155, A:E.180, A:N.189 Salt bridges: A:R.80, A:R.155 SO4.3: 3 residues within 4Å: Chain A: N.93, K.170, R.172 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.93, A:N.93, A:L.171 Salt bridges: A:R.172 SO4.4: 2 residues within 4Å: Chain A: K.74, K.76 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.74, A:K.76

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 10 residues within 4Å: Chain A: Q.36, Y.39, Q.40, L.41, V.67, I.69, V.101, D.103, P.104, A.110 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.36, A:Y.39, A:D.103 Water bridges: A:L.41 EDO.6: 7 residues within 4Å: Chain A: K.229, F.232, F.233, H.234, R.244, V.248, F.284 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.229, A:R.244 EDO.7: 7 residues within 4Å: Chain A: V.248, L.249, R.278, K.279, W.281, D.302, R.306 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.248, A:R.278, A:R.278, A:W.281, A:D.302 Water bridges: A:R.306

1 x EXX: 4,5,6,7-tetrabromo-1-(2-deoxy-beta-D-erythro-pentofuranosyl)-1H-benzimidazole(Non-covalent)

EXX.8: 13 residues within 4Å: Chain A: 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 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.118, A:N.118 Water bridges: A:R.43, A:L.45 Halogen bonds: A:V.116

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.9: 6 residues within 4Å: Chain A: K.49, R.191, S.194, R.195, K.198, N.238 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.191, A:R.195, A:K.198 Water bridges: A:K.158, A:N.238

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.10: 1 residues within 4Å: Chain A: V.105 No protein-ligand interaction detected (PLIP)

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

DMS.11: 9 residues within 4Å: Chain A: F.121, K.122, K.158, P.159, H.160, Y.196, F.197, E.230, P.231 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.160 Salt bridges: A:E.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cozza, G. et al., Cell-permeable dual inhibitors of protein kinases CK2 and PIM-1: structural features and pharmacological potential. Cell.Mol.Life Sci. (2014)

Release Date

2014-04-09

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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