SMTL ID : 5yy1.1

Co-crystal Structure of KRAS (G12C) covalently bound with Quinazoline based inhibitor JBI739

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: S.18 Ligands: GDP.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.18, H2O.1, H2O.1, H2O.2, H2O.3

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.2: 21 residues within 4Å: Chain A: A.12, C.13, G.14, V.15, G.16, K.17, S.18, A.19, F.29, V.30, D.31, Y.33, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: MG.1, 94F.3 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:G.14, A:V.15, A:G.16, A:K.17, A:S.18, A:A.19, A:D.31, A:Y.33, A:N.117, A:K.118, A:K.118, A:A.147, A:K.148 Water bridges: A:S.18, A:S.18, A:S.18, A:Y.33, A:Y.33, A:K.148, A:K.148 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29, A:F.29

1 x 94F: 1-[4-[6-chloranyl-8-fluoranyl-7-[2-(trifluoromethyl)phenyl]quinazolin-4-yl]piperazin-1-yl]propan-1-one(Covalent)

94F.3: 22 residues within 4Å: Chain A: V.10, G.11, C.13, K.17, P.35, T.59, A.60, G.61, Q.62, E.63, Y.65, R.69, D.70, M.73, H.96, Y.97, Q.100, I.101, R.103, V.104 Ligands: GDP.2, EDO.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:R.69, A:M.73, A:Y.97, A:Q.100, A:V.104 Hydrogen bonds: A:K.17, A:Y.65 Water bridges: A:Y.97

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

EDO.4: 5 residues within 4Å: Chain A: G.139, I.140, P.141, E.163, K.166 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.140 Water bridges: A:E.163 EDO.5: 3 residues within 4Å: Chain A: E.63, H.96 Ligands: 94F.3 1 PLIP interactions: 1 interactions with chain A Water bridges: A:E.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Swaminathan, S. et al., Co-crystal Structure of KRAS (G12C) covalently bound with Quinazoline based inhibitor JBI739. To Be Published

Release Date

2018-04-18

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase KRas

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