SMTL ID : 7oox.1

Crystal structure of PIM1 in complex with ARC-3126

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

monomer

Ligands

1 x 06E- DAR- DAR- DAR- DAR- DAR- DAR- DLY- NH2: Inhibitor ARC-3126(Non-covalent)

06E-DAR-DAR-DAR-DAR-DAR-DAR-DLY-NH2.1: 24 residues within 4Å: Chain A: L.45, G.49, F.50, G.51, V.53, A.66, K.68, L.121, E.122, R.123, D.129, F.131, D.132, I.134, T.135, E.172, L.175, I.186, D.187, G.239, D.240, I.241, E.244, H.245 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:F.50, A:F.50, A:A.66, A:L.175, A:D.240 Hydrogen bonds: A:F.50, A:K.68, A:F.131, A:D.132, A:T.135, A:T.135, A:E.172, A:D.187, A:D.240, A:E.244 Water bridges: A:S.47, A:D.171, A:E.172, A:F.188, A:Y.208, A:Y.208, A:D.240, A:R.257 Salt bridges: A:D.129, A:D.132, A:E.172, A:D.240, A:E.244 pi-Cation interactions: A:F.131

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

PO4.2: 2 residues within 4Å: Chain A: R.157, F.282 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.283 Water bridges: A:R.222, A:F.282 Salt bridges: A:R.157

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 3 residues within 4Å: Chain A: R.206, S.209, D.246 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.206 EDO.4: 2 residues within 4Å: Chain A: D.196, R.222 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.196 Water bridges: A:R.222, A:R.222 EDO.5: 2 residues within 4Å: Chain A: K.195, T.197 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.197 Water bridges: A:D.196

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nonga, O.E. et al., Crystal Structure-Guided Design of Bisubstrate Inhibitors and Photoluminescent Probes for Protein Kinases of the PIM Family. Molecules (2021)

Release Date

2021-08-04

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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