SMTL ID : 5o11.1

Crystal structure of PIM1 kinase in complex with small-molecule inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x 3NG: 5-[(3-chlorophenyl)amino]benzo[c][2,6]naphthyridine-8-carboxylic acid(Non-covalent)

3NG.1: 14 residues within 4Å: Chain A: L.29, G.30, S.31, V.37, A.50, K.52, L.105, E.106, R.107, P.108, L.159, I.170, D.171 Ligands: GOL.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.29, A:L.29, A:V.37, A:A.50, A:L.105, A:L.159, A:I.170, A:I.170, A:I.170 Hydrogen bonds: A:D.171 Water bridges: A:F.172, A:F.172 Salt bridges: A:K.52

1 x IMD: IMIDAZOLE(Non-covalent)

IMD.2: 7 residues within 4Å: Chain A: F.115, I.118, T.119, D.155, D.219, G.223, D.224 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.119

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: D.113, E.156, N.157, I.170, D.171 Ligands: 3NG.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.113, A:D.113, A:N.157, A:D.171 Water bridges: A:K.154, A:N.157 GOL.4: 1 residues within 4Å: Chain A: R.164 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.164

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

CL.5: 1 residues within 4Å: Chain A: R.130 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bogusz, J. et al., Structural analysis of PIM1 kinase complexes with ATP-competitive inhibitors. Sci Rep (2017)

Release Date

2017-11-01

Peptides

Serine/threonine-protein kinase pim-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Serine/threonine-protein kinase pim-1

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