SMTL ID : 6ypn.1

Crystal Structure of CK2alpha with 2 molecules of ADP bound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

monomer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 15 residues within 4Å: Chain A: S.51, V.53, V.66, K.68, I.95, E.114, V.116, H.160, N.161, M.163, I.174, D.175 Ligands: MG.4, MG.5, PO4.6 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:S.51, A:E.114, A:V.116, A:D.175, A:D.175 Water bridges: A:G.48, A:H.160, A:N.161 Salt bridges: A:K.68, A:K.68 ADP.3: 11 residues within 4Å: Chain A: Y.50, K.77, R.80, R.155, D.156, L.178, N.189, R.191, V.192 Ligands: MG.5, PO4.6 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:Y.50, A:D.156, A:N.189, A:N.189 Water bridges: A:K.77, A:R.80, A:R.155, A:R.155, A:D.156, A:K.158, A:L.178 Salt bridges: A:K.77, A:K.77, A:R.80, A:R.155 pi-Stacking: A:Y.50

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

ACT.2: 3 residues within 4Å: Chain A: K.158, H.160 Ligands: PO4.6 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.158, A:H.160

2 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 5 residues within 4Å: Chain A: N.161, D.175 Ligands: ADP.1, MG.5, PO4.6 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.175, H2O.1 MG.5: 5 residues within 4Å: Chain A: D.175 Ligands: ADP.1, ADP.3, MG.4, PO4.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.175, A:D.175, H2O.1, H2O.2

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

PO4.6: 10 residues within 4Å: Chain A: D.156, K.158, N.161, D.175, S.194 Ligands: ADP.1, ACT.2, ADP.3, MG.4, MG.5 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.161, A:S.194 Water bridges: A:D.156, A:K.158, A:S.194 Salt bridges: A:K.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brear, P. et al., Proposed Allosteric Inhibitors Bind to the ATP Site of CK2 alpha. J.Med.Chem. (2020)

Release Date

2020-07-15

Peptides

Casein kinase II subunit alpha: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Casein kinase II subunit alpha

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