SMTL ID : 5euq.1

Crystal structure of an engineered construct of phosphatidylinositol 4 kinase III beta with a potent and selective inhibitor in complex with GDP loaded Rab11

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.1: 19 residues within 4Å: Chain A: S.23, G.24, V.25, G.26, K.27, S.28, N.29, F.39, N.40, L.41, N.127, K.128, D.130, L.131, S.157, A.158, L.159 Chain B: G.39, Y.43 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:D.22, A:G.24, A:V.25, A:G.26, A:K.27, A:S.28, A:N.40, A:N.127, A:K.128, A:A.158, A:L.159 Salt bridges: A:K.27, A:D.130 pi-Stacking: A:F.39, A:F.39

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

SO4.2: 4 residues within 4Å: Chain B: I.349, H.350, K.353, N.404 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.404 Salt bridges: B:H.350, B:K.353 SO4.3: 6 residues within 4Å: Chain B: Y.67, K.79, R.116, G.117, K.119, L.120 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.67, B:K.119, B:L.120 Salt bridges: B:K.79, B:R.116

1 x 5S8: ~{N}-[5-[3-[[(4-hydroxyphenyl)amino]-bis(oxidanyl)-$l^{4}-sulfanyl]-4-methoxy-phenyl]-4-methyl-1,3-thiazol-2-yl]cyclopentanecarboxamide(Non-covalent)

5S8.4: 18 residues within 4Å: Chain B: L.219, P.226, I.292, K.294, E.302, Y.328, I.340, E.341, P.342, V.343, A.346, V.347, S.348, G.405, N.406, L.408, I.418, D.419 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:I.292, B:Y.328, B:I.340, B:V.343, B:I.418, B:I.418 Hydrogen bonds: B:K.294, B:K.294, B:V.343, B:V.343, B:G.405

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rutaganira, F.U. et al., Design and Structural Characterization of Potent and Selective Inhibitors of Phosphatidylinositol 4 Kinase III beta. J.Med.Chem. (2016)

Release Date

2016-02-24

Peptides

Ras-related protein Rab-11A: A
Phosphatidylinositol 4-kinase beta: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
E

Ras-related protein Rab-11A

Phosphatidylinositol 4-kinase beta

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