SMTL ID : 8hv4.1

Crystal structure of EGFR_TMX in complex with covalently bound fragment 4

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)

PE5.1: 10 residues within 4Å: Chain A: P.79, H.80, N.123, V.126, Q.127, K.130, Q.156, H.157, E.322 Ligands: CL.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.127 Water bridges: A:N.123

1 x MWU: ~{N}-pyridin-2-ylprop-2-enamide(Covalent)

MWU.2: 9 residues within 4Å: Chain A: V.33, A.50, C.82, M.97, Q.98, L.99, M.100, L.151, T.161 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.33, A:A.50, A:M.97, A:L.151 Hydrogen bonds: A:Q.98, A:M.100

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 3 residues within 4Å: Chain A: W.212, P.241, P.244 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.219

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: N.123, A.279 Ligands: PE5.1 Ligand excluded by PLIP CL.5: 1 residues within 4Å: Chain A: A.166 Ligand excluded by PLIP CL.6: 2 residues within 4Å: Chain A: I.325, P.326 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuki, N. et al., A covalent fragment-based strategy targeting a novel cysteine to inhibit activity of mutant EGFR kinase. Rsc Med Chem (2023)

Release Date

2023-12-13

Peptides

Epidermal growth factor receptor: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Epidermal growth factor receptor

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