SMTL ID : 4oys.1

CRYSTAL STRUCTURE OF VPS34 IN COMPLEX WITH SAR405.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: N.47, Q.48, E.49, K.50, K.78 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.49, A:E.49, A:K.50 Salt bridges: A:K.50, A:K.78 SO4.2: 2 residues within 4Å: Chain A: R.107, R.204 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.107, A:R.204 SO4.3: 2 residues within 4Å: Chain A: T.476, K.478 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.476 Salt bridges: A:K.478 SO4.4: 4 residues within 4Å: Chain A: L.115, Y.214, Y.218, Q.371 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.371

1 x 1TT: (8S)-9-[(5-chloranylpyridin-3-yl)methyl]-2-[(3R)-3-methylmorpholin-4-yl]-8-(trifluoromethyl)-6,7,8,9a-tetrahydro-3H-pyrimido[1,2-a]pyrimidin-4-one(Non-covalent)

1TT.5: 16 residues within 4Å: Chain A: F.334, S.336, P.340, I.356, K.358, Y.392, M.404, Q.405, F.406, I.407, S.409, P.411, D.469, L.472, I.482, D.483 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.356, A:M.404, A:I.482 Hydrogen bonds: A:I.407, A:D.483 Water bridges: A:K.358 Halogen bonds: A:S.409

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ronan, B. et al., A highly potent and selective Vps34 inhibitor alters vesicle trafficking and autophagy. Nat.Chem.Biol. (2014)

Release Date

2014-10-22

Peptides

Phosphatidylinositol 3-kinase catalytic subunit type 3: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphatidylinositol 3-kinase catalytic subunit type 3

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