SMTL ID : 6b0y.2 (1 other biounit)

Crystal Structure of small molecule ARS-917 covalently bound to K-Ras G12C

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.43 Å

Oligo State

monomer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: E.63, E.64, Y.65, H.96 Ligands: 8ZG.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.63 Water bridges: A:Q.100 GOL.5: 6 residues within 4Å: Chain A: I.22, Q.26, H.28, V.30, Y.33, Y.41 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.26, A:Y.41

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 2 residues within 4Å: Chain A: S.18 Ligands: GDP.6 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.18, H2O.1, H2O.2, H2O.2, H2O.3 CA.3: 1 residues within 4Å: Chain A: G.139 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:G.139, H2O.1, H2O.1, H2O.4, H2O.6

1 x 8ZG: 1-{4-[6-chloro-7-(2-fluorophenyl)quinazolin-4-yl]piperazin-1-yl}propan-1-one(Covalent)

8ZG.4: 20 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, R.69, D.70, M.73, H.96, Y.97, Q.100, I.101, V.104 Ligands: GOL.1, GDP.6 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:M.73, A:Q.100, A:I.101, A:V.104 Hydrogen bonds: A:K.17 pi-Stacking: A:Y.97, A:Y.97

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

GDP.6: 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, E.32, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: CA.2, 8ZG.4 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:A.12, A:G.14, A:V.15, A:G.16, A:K.17, A:S.18, A:A.19, A:V.30, A:E.32, A:N.117, A:K.118, A:K.118, A:S.146, A:A.147, A:K.148 Water bridges: A:Y.33 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29, A:F.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hansen, R. et al., The reactivity-driven biochemical mechanism of covalent KRASG12Cinhibitors. Nat. Struct. Mol. Biol. (2018)

Release Date

2018-05-16

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GTPase KRas

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