SMTL ID : 5c4g.1

Crystal structure of an engineered construct of phosphatidylinositol 4 kinase III beta with the inhibitor BQR695 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 MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: S.28, K.44, S.45 Ligands: GDP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.28

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

GDP.2: 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, S.43, N.127, K.128, D.130, L.131, S.157, A.158, L.159 Ligands: MG.1 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.24, A:V.25, A:G.26, A:K.27, A:S.28, A:S.28, A:N.29, A:N.40, A:S.43, A:N.127, A:K.128, A:A.158, A:L.159 Salt bridges: A:D.130 pi-Stacking: A:F.39

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

SO4.3: 5 residues within 4Å: Chain B: Y.67, R.116, G.117, K.119, L.120 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Y.67, B:R.116, B:K.119, B:L.120 Salt bridges: B:R.116 SO4.4: 4 residues within 4Å: Chain B: R.210, P.212, H.213, T.214 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:H.213, B:T.214, B:T.214 Salt bridges: B:R.210, B:H.213

1 x BQR: N~2~-[7-(3,4-dimethoxyphenyl)quinoxalin-2-yl]-N-methylglycinamide(Non-covalent)

BQR.5: 16 residues within 4Å: Chain B: L.219, P.226, L.228, I.292, K.294, D.297, E.302, Y.328, I.340, P.342, V.343, A.346, V.347, L.408, I.418, D.419 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.328, B:I.340, B:I.340, B:I.418 Hydrogen bonds: B:K.294, B:V.343, B:A.346 pi-Stacking: B:Y.328

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fowler, M.L. et al., Using hydrogen deuterium exchange mass spectrometry to engineer optimized constructs for crystallization of protein complexes: Case study of PI4KIII beta with Rab11. Protein Sci. (2016)

Release Date

2016-01-20

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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