SMTL ID : 5m4u.1

ORTHORHOMBIC COMPLEX STRUCTURE OF HUMAN PROTEIN KINASE CK2 CATALYTIC SUBUNIT (ISOFORM CK2ALPHA') WITH THE INHIBITOR 4'-CARBOXY-6,8-CHLORO- FLAVONOL (FLC21)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

monomer

Ligands

1 x 7FC: 4-[6,8-bis(chloranyl)-3-oxidanyl-4-oxidanylidene-chromen-2-yl]benzoic acid(Non-covalent)

7FC.1: 14 residues within 4Å: Chain A: L.60, G.61, R.62, V.81, K.83, I.110, F.128, E.129, Y.130, I.131, N.133, M.178, I.189, D.190 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.60, A:V.81, A:F.128, A:F.128, A:F.128, A:Y.130, A:I.189, A:I.189, A:I.189 Hydrogen bonds: A:I.131, A:D.190 Water bridges: A:D.190, A:W.191, A:W.191 Salt bridges: A:K.83 Halogen bonds: A:G.61

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: W.48, K.94, K.117 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.94, A:K.94, A:K.117, A:K.117 GOL.3: 4 residues within 4Å: Chain A: R.23, A.24, R.25, A.28 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.23, A:R.25 GOL.4: 4 residues within 4Å: Chain A: W.39, H.198, Q.201 Ligands: ACT.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.198 GOL.5: 3 residues within 4Å: Chain A: H.291, S.292, K.294 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.291, A:S.292, A:K.294 Water bridges: A:S.292, A:S.292, A:K.294 GOL.6: 7 residues within 4Å: Chain A: F.136, K.137, H.175, Y.211, F.212, E.245, P.246 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.137, A:H.175, A:E.245 Water bridges: A:E.245

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

ACT.7: 3 residues within 4Å: Chain A: E.29, S.32, L.33 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.33 ACT.8: 5 residues within 4Å: Chain A: W.39, D.40, Y.41, E.42 Ligands: GOL.4 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.41, A:E.42 Hydrogen bonds: A:E.42 ACT.9: 4 residues within 4Å: Chain A: R.206, A.208, K.213, N.253 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.253 Salt bridges: A:K.213

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.10: 2 residues within 4Å: Chain A: E.101, R.104 Ligand excluded by PLIP

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

SO4.11: 5 residues within 4Å: Chain A: K.92, R.95, R.170, N.204, V.207 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.204 Water bridges: A:R.170, A:E.195, A:N.204 Salt bridges: A:K.92, A:R.95, A:R.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Niefind, K. et al., Structural Hypervariability of the Two Human Protein Kinase CK2 Catalytic Subunit Paralogs Revealed by Complex Structures with a Flavonol- and a Thieno[2,3-d]pyrimidine-Based Inhibitor. Pharmaceuticals (2017)

Release Date

2017-01-18

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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