SMTL ID : 8uw9.1

Structure of AKT1(E17K) with compound 4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x XQ2: N-({4-[(2P)-2-(2-aminopyridin-3-yl)-5-phenyl-3H-imidazo[4,5-b]pyridin-3-yl]phenyl}methyl)-2-(2-fluoro-4-formyl-3-hydroxyphenyl)acetamide

XQ2.1: 20 residues within 4Å: Chain A: K.16, N.52, N.53, Q.78, W.79, T.81, I.83, L.202, T.203, L.256, V.262, V.263, Y.264, R.265, I.282, T.283, D.284, C.288, C.302 Ligands: ZN.9 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:K.16, A:N.52, A:Q.78, A:Q.78, A:W.79, A:I.83, A:L.202, A:L.256, A:V.262, A:Y.264, A:Y.264, A:I.282 Hydrogen bonds: A:T.203, A:T.203 Water bridges: A:T.81, A:T.81, A:R.265, A:R.265, A:D.284 pi-Stacking: A:W.79, A:W.79, A:Y.264

3 x EDO: 1,2-ETHANEDIOL

EDO.2: 9 residues within 4Å: Chain A: F.228, L.231, S.232, L.269, E.333, G.337, R.338, L.339 Ligands: EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.232, A:G.337 EDO.3: 8 residues within 4Å: Chain A: K.13, R.14, K.16, E.84, R.85, T.86, E.290 Ligands: SO4.7 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.14, A:E.84, A:T.86 EDO.4: 4 residues within 4Å: Chain A: R.338, L.339, Y.342 Ligands: EDO.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.339

4 x SO4: SULFATE ION

SO4.5: 4 residues within 4Å: Chain A: R.338, R.359, P.361, R.362 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.362 Salt bridges: A:R.338, A:R.359, A:R.362 SO4.6: 1 residues within 4Å: Chain A: Q.406 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.406 SO4.7: 3 residues within 4Å: Chain A: K.13, R.265 Ligands: EDO.3 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.265, A:R.265, A:Y.318, A:Y.318 Salt bridges: A:K.13, A:R.265 SO4.8: 5 residues within 4Å: Chain A: K.19, R.22, R.24, K.38, E.314 3 PLIP interactions: 3 interactions with chain A Salt bridges: A:R.22, A:R.24, A:K.38

1 x ZN: ZINC ION

ZN.9: 5 residues within 4Å: Chain A: K.16, C.288, K.289, C.302 Ligands: XQ2.1 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.288, A:C.302

1 x CL: CHLORIDE ION

CL.10: 3 residues within 4Å: Chain A: N.223, D.275, K.276 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Craven, G.B. et al., Mutant-selective AKT inhibition through lysine targeting and neo-zinc chelation. Nature (2024)

Release Date

2024-09-04

Peptides

RAC-alpha serine/threonine-protein kinase: A
NB41: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

RAC-alpha serine/threonine-protein kinase

NB41

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