SMTL ID : 5yvc.1

Structure of CaMKK2 in complex with CKI-012

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

monomer

Ligands

1 x SU6: 3-{2,4-dimethyl-5-[(Z)-(2-oxo-1,2-dihydro-3H-indol-3-ylidene)methyl]-1H-pyrrol-3-yl}propanoic acid(Non-covalent)

SU6.1: 16 residues within 4Å: Chain A: I.21, V.29, A.42, K.44, E.86, F.117, E.118, L.119, V.120, N.121, Q.122, G.123, P.124, L.169, A.179, D.180 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:I.21, A:V.29, A:A.42, A:F.117, A:F.117, A:V.120, A:L.169, A:A.179 Hydrogen bonds: A:V.120, A:N.121, A:G.123, A:D.180, A:D.180 Salt bridges: A:K.44

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: E.282, S.283, R.284, I.285, E.289 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.282 Water bridges: A:R.275, A:S.283 GOL.3: 3 residues within 4Å: Chain A: Q.138, F.141, Y.142 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.142 GOL.4: 5 residues within 4Å: Chain A: F.187, K.188, D.191, A.192, L.193 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.188, A:L.193 Water bridges: A:K.188, A:D.191

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

PGE.5: 2 residues within 4Å: Chain A: D.242, R.244 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.242, A:R.244

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

CL.6: 3 residues within 4Å: Chain A: K.164, P.165, S.166 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Takaya, D. et al., Protein ligand interaction analysis against new CaMKK2 inhibitors by use of X-ray crystallography and the fragment molecular orbital (FMO) method. J.Mol.Graph.Model. (2020)

Release Date

2018-12-05

Peptides

Calcium/calmodulin-dependent protein kinase kinase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Calcium/calmodulin-dependent protein kinase kinase 2

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