SMTL ID : 8q6f.1

HUMAN PI4KIIIB IN COMPLEX WITH COVALENTLY BOUND INHIBITOR (COMPOUND 4)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.51 Å

Oligo State

monomer

Ligands

1 x KHR: 3-(3-fluorosulfonyloxy-4-methoxy-phenyl)-2,5-dimethyl-7-(pyridin-4-ylmethylamino)pyrazolo[1,5-a]pyrimidine(Covalent)

KHR.1: 19 residues within 4Å: Chain A: L.85, P.92, L.94, Y.96, A.140, L.141, I.170, K.172, E.180, Y.206, I.218, P.220, V.221, V.222, A.224, I.296, D.297 Ligands: EDO.7, GOL.10 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:L.141, A:Y.206, A:Y.206, A:I.218, A:P.220, A:V.222, A:I.296, A:I.296 Hydrogen bonds: A:Y.96, A:K.172, A:V.221, A:V.221

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: Q.417, T.420, N.421, G.422 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:Q.417, A:T.420, A:G.422

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

EDO.3: 6 residues within 4Å: Chain A: W.145, L.166, L.167, S.168, E.219, V.222 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.168, A:S.168, A:E.219 EDO.4: 5 residues within 4Å: Chain A: V.149, R.153, W.164, R.165, L.166 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.153, A:L.166, A:L.166 EDO.5: 6 residues within 4Å: Chain A: R.76, P.78, H.79, T.80, Q.81 Ligands: EDO.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:P.78, A:T.80, A:Q.81 EDO.6: 4 residues within 4Å: Chain A: P.200, L.201, W.202, Q.263 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.263 Water bridges: A:L.201, A:N.260, A:H.292 EDO.7: 5 residues within 4Å: Chain A: G.283, N.284, I.296, D.297 Ligands: KHR.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.283 EDO.8: 5 residues within 4Å: Chain A: P.78, Q.81, R.151, G.155 Ligands: EDO.5 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.76, A:R.76 EDO.9: 8 residues within 4Å: Chain A: Q.276, V.277, K.278, N.308, E.312, T.313, S.314, A.315 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.276, A:V.277, A:E.312, A:A.315 Water bridges: A:K.278, A:E.312

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 6 residues within 4Å: Chain A: L.141, A.224, V.225, S.226, Q.229 Ligands: KHR.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.224, A:S.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cosgrove, B. et al., Covalent targeting of non-cysteine residues in PI4KIII beta. Rsc Chem Biol (2023)

Release Date

2023-12-13

Peptides

Phosphatidylinositol 4-kinase beta: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Phosphatidylinositol 4-kinase beta

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