SMTL ID : 5enn.2 (1 other biounit)

The crystal structure of Human VPS34 in complex with a selective and potent inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

1 x 5QS: 1-[[4-(cyclopropylmethyl)-5-[2-(pyridin-4-ylamino)pyrimidin-4-yl]pyrimidin-2-yl]amino]-2-methyl-propan-2-ol(Non-covalent)

5QS.1: 13 residues within 4Å: Chain A: F.350, S.352, I.372, K.374, Y.408, M.420, Q.421, F.422, I.423, S.425, L.488, I.498, D.499 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.350, A:F.350, A:I.372, A:K.374, A:F.422, A:L.488, A:I.498 Hydrogen bonds: A:K.374, A:I.423, A:I.423, A:D.499 Water bridges: A:K.374, A:D.382, A:D.382 pi-Stacking: A:Y.408

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 1 residues within 4Å: Chain A: M.132 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 8 residues within 4Å: Chain A: L.405, T.406, P.407, Y.408, K.409, Q.421, I.423, K.494 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.421, A:K.494 Water bridges: A:K.409, A:Q.421

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 5 residues within 4Å: Chain A: Y.232, S.263, R.277, L.280, A.281 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.277 Salt bridges: A:R.277

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kearney, E.P., Potent, selective, and orally bioavailable inhibitors of VPS34 provide chemical tools to modulate autophagy in vivo. To Be Published

Release Date

2016-11-16

Peptides

Phosphatidylinositol 3-kinase catalytic subunit type 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Phosphatidylinositol 3-kinase catalytic subunit type 3

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