SMTL ID : 5uga.1

Crystal structure of the EGFR kinase domain (L858R, T790M, V948R) in complex with 4-(4-{[2-{[(3S)-1-acetylpyrrolidin-3-yl]amino}-9-(propan-2-yl)-9H-purin-6-yl]amino}phenyl)-1-methylpiperazin-1-ium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.82 Å

Oligo State

monomer

Ligands

1 x 8BM: 4-(4-{[2-{[(3S)-1-acetylpyrrolidin-3-yl]amino}-9-(propan-2-yl)-9H-purin-6-yl]amino}phenyl)-1-methylpiperazin-1-ium(Non-covalent)

8BM.1: 18 residues within 4Å: Chain A: L.25, G.26, S.27, F.30, V.33, A.50, C.82, M.97, Q.98, L.99, M.100, P.101, F.102, G.103, N.149, L.151, T.161, F.163 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.30, A:V.33, A:A.50, A:M.97 Hydrogen bonds: A:M.100, A:M.100, A:N.149

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

SO4.2: 5 residues within 4Å: Chain A: R.143, Y.176, A.178, E.179, G.180 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.165, A:E.179 Water bridges: A:R.143, A:R.143, A:R.143, A:K.167 Salt bridges: A:R.143, A:K.167 SO4.3: 2 residues within 4Å: Chain A: R.110, K.220 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.110, A:K.220

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: N.123, V.126, Q.127, K.130 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.123, A:Q.127 Water bridges: A:K.130 GOL.5: 5 residues within 4Å: Chain A: T.247, I.248, D.249, R.284, Y.285 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.248, A:D.249, A:D.249, A:R.284 GOL.6: 6 residues within 4Å: Chain A: L.54, E.56, A.57, P.60, K.61, V.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.57, A:K.61

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Planken, S. et al., Discovery of N-((3R,4R)-4-Fluoro-1-(6-((3-methoxy-1-methyl-1H-pyrazol-4-yl)amino)-9-methyl-9H-purin-2-yl)pyrrolidine-3-yl)acrylamide (PF-06747775) through Structure-Based Drug Design: A High Affinity Irreversible Inhibitor Targeting Oncogenic EGFR Mutants with Selectivity over Wild-Type EGFR. J. Med. Chem. (2017)

Release Date

2017-03-22

Peptides

Epidermal growth factor receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Epidermal growth factor receptor

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