SMTL ID : 4dgm.1

Crystal Structure of maize CK2 in complex with the inhibitor apigenin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

monomer

Ligands

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

EDO.1: 6 residues within 4Å: Chain A: Y.119, P.153, M.215, G.218, M.219, E.224 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:M.215 EDO.2: 3 residues within 4Å: Chain A: T.123, D.124, H.285 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.124 Water bridges: A:Y.125 EDO.3: 7 residues within 4Å: Chain A: V.5, Y.205, S.206, M.209, R.306, L.307, T.308 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.306 Water bridges: A:H.142, A:S.206, A:R.306, A:A.309 EDO.4: 6 residues within 4Å: Chain A: A.3, R.4, V.5, Y.6, A.7, D.8 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.3, A:A.7, A:D.8, A:D.8

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

PEG.5: 8 residues within 4Å: Chain A: L.243, R.272, D.296, L.299, R.300, Y.301, D.302, E.305 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.296, A:Y.301, A:D.302, A:E.305 Water bridges: A:D.296

1 x AGI: 5,7-dihydroxy-2-(4-hydroxyphenyl)-4H-chromen-4-one(Non-covalent)

AGI.6: 12 residues within 4Å: Chain A: V.39, V.47, I.60, K.62, E.75, V.89, F.107, V.110, N.112, M.157, I.168, D.169 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.60, A:I.60, A:K.62, A:V.89, A:F.107, A:N.112, A:I.168, A:I.168, A:I.168 Hydrogen bonds: A:E.75, A:V.110, A:V.110, A:N.112, A:D.169

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lolli, G. et al., Inhibition of protein kinase CK2 by flavonoids and tyrphostins. A structural insight. Biochemistry (2012)

Release Date

2012-08-01

Peptides

Casein kinase II subunit alpha: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Casein kinase II subunit alpha