SMTL ID : 7k1i.1

EGFR kinase (L858R/V948R) in complex with allosteric inhibitor JBJ-09-063

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: K.54, N.151, D.164 Ligands: ANP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.164 MG.4: 4 residues within 4Å: Chain B: K.54, N.151, D.164 Ligands: ANP.5 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.164

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 21 residues within 4Å: Chain A: L.27, G.28, S.29, G.30, F.32, V.35, A.52, K.54, T.99, Q.100, L.101, M.102, C.106, D.146, R.150, N.151, L.153, D.164, R.167 Ligands: MG.1, VNS.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:G.30, A:T.99, A:Q.100, A:M.102, A:C.106, A:D.146, A:R.150, A:N.151, A:D.164, A:R.167, A:R.167 Salt bridges: A:K.54 ANP.5: 21 residues within 4Å: Chain B: L.27, G.28, S.29, G.30, F.32, V.35, A.52, K.54, T.99, Q.100, L.101, M.102, C.106, D.146, R.150, N.151, L.153, D.164, R.167 Ligands: MG.4, VNS.6 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:G.30, B:Q.100, B:M.102, B:C.106, B:D.146, B:R.150, B:N.151, B:R.167, B:R.167 Salt bridges: B:K.54

2 x VNS: (2R)-2-(5-fluoro-2-hydroxyphenyl)-2-{6-[4-(1-methylpiperidin-4-yl)phenyl]-1-oxo-1,3-dihydro-2H-isoindol-2-yl}-N-(1,3-thiazol-2-yl)acetamide(Non-covalent)

VNS.3: 16 residues within 4Å: Chain A: V.35, A.52, I.53, K.54, I.68, E.71, M.75, C.84, R.85, L.86, L.97, T.99, D.164, F.165, R.167 Ligands: ANP.2 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.68, A:I.68, A:M.75, A:L.97, A:T.99 Hydrogen bonds: A:D.164, A:R.167 pi-Stacking: A:F.165 VNS.6: 16 residues within 4Å: Chain B: V.35, A.52, I.53, K.54, I.68, E.71, M.75, C.84, R.85, L.86, L.97, T.99, D.164, F.165, R.167 Ligands: ANP.5 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:I.68, B:I.68, B:M.75, B:L.97, B:T.99 Hydrogen bonds: B:T.99, B:D.164, B:R.167 pi-Stacking: B:F.165

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Beyett, T.S. et al., Molecular basis for cooperative binding and synergy of ATP-site and allosteric EGFR inhibitors. Nat Commun (2022)

Release Date

2021-09-15

Peptides

Epidermal growth factor receptor: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Epidermal growth factor receptor

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