SMTL ID : 5ug9.1

Crystal structure of the EGFR kinase domain (L858R, T790M, V948R) in complex with a covalent inhibitor N-[(3R,4R)-4-fluoro-1-{6-[(3-methoxy-1-methyl-1H-pyrazol-4-yl)amino]-9-(propan-2-yl)-9H-purin-2-yl}pyrrolidin-3-yl]propanamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.33 Å

Oligo State

monomer

Ligands

1 x 8AM: N-[(3R,4R)-4-fluoro-1-{6-[(3-methoxy-1-methyl-1H-pyrazol-4-yl)amino]-9-(propan-2-yl)-9H-purin-2-yl}pyrrolidin-3-yl]propanamide(Covalent)

8AM.1: 19 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, G.103, C.104, D.107, R.148, L.151, T.161, F.163 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.151 Hydrogen bonds: A:M.100, A:M.100 Water bridges: A:C.104, A:R.148

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

SO4.2: 6 residues within 4Å: Chain A: R.143, Y.176, A.178, E.179, G.180, G.181 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:R.165, A:E.179, A:G.181 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 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.110 Salt bridges: A:R.110, A:K.220

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 2 residues within 4Å: Chain A: M.252, R.255 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.255, A:R.255, A:R.255, A:R.255 GOL.5: 4 residues within 4Å: Chain A: R.239, R.255, W.258, M.259 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.255, A:W.258 GOL.6: 1 residues within 4Å: Chain A: D.223 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.223

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

EDO.7: 4 residues within 4Å: Chain A: D.144, R.148, N.149, F.163 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.144, A:R.148, A:N.149 Water bridges: A:R.148

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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