SMTL ID : 6ym5.1

Crystal structure of BAY-091 with PIP4K2A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

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

PO4.1: 4 residues within 4Å: Chain A: D.348, L.350, T.351 Ligands: OZ5.2 3 PLIP interactions: 3 interactions with chain A Water bridges: A:T.351, A:T.351, A:T.351 PO4.3: 3 residues within 4Å: Chain B: D.140, D.348 Ligands: OZ5.4 No protein-ligand interaction detected (PLIP)

2 x OZ5: (2~{R})-2-[[3-cyano-2-[4-(2-fluoranyl-3-methyl-phenyl)phenyl]-1,7-naphthyridin-4-yl]amino]butanoic acid(Non-covalent)

OZ5.2: 17 residues within 4Å: Chain A: F.123, I.132, K.134, I.136, D.140, F.167, I.183, T.185, N.187, V.188, K.198, D.200, T.221, L.266, I.347, D.348 Ligands: PO4.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:K.134, A:I.136, A:F.167, A:L.266, A:I.347 Hydrogen bonds: A:K.134, A:V.188 Water bridges: A:T.185 Salt bridges: A:K.198 OZ5.4: 19 residues within 4Å: Chain B: F.123, I.132, K.134, I.136, D.140, M.144, F.167, I.183, T.185, R.186, N.187, V.188, K.198, T.221, L.266, I.347, D.348, L.350 Ligands: PO4.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:K.134, B:I.136, B:I.183, B:L.266, B:L.266, B:I.347, B:L.350 Hydrogen bonds: B:K.134, B:V.188, B:T.221 Salt bridges: B:K.198

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wortmann, L. et al., Discovery and Characterization of the Potent and Highly Selective 1,7-Naphthyridine-Based Inhibitors BAY-091 and BAY-297 of the Kinase PIP4K2A. J.Med.Chem. (2021)

Release Date

2021-04-14

Peptides

Phosphatidylinositol 5-phosphate 4-kinase type-2 alpha: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Phosphatidylinositol 5-phosphate 4-kinase type-2 alpha

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