SMTL ID : 6b0v.1 (1 other biounit)

Crystal Structure of small molecule ARS-107 covalently bound to K-Ras G12C

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.29 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 2 residues within 4Å: Chain A: S.18 Ligands: GDP.4 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 CA.2: 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.2, H2O.3, H2O.7

1 x C8G: 1-[3-(4-{[(4,5-dichloro-2-hydroxyphenyl)amino]acetyl}piperazin-1-yl)azetidin-1-yl]propan-1-one(Covalent)

C8G.3: 17 residues within 4Å: Chain A: G.11, C.13, K.17, P.35, A.60, G.61, Q.62, E.64, Y.65, R.69, D.70, M.73, Y.97, Q.100, I.101, V.104 Ligands: GDP.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.104 Hydrogen bonds: A:K.17, A:E.64, A:R.69

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

GDP.4: 20 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, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: CA.1, C8G.3 23 PLIP interactions: 23 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:Y.33, A:N.117, A:K.118, A:K.118, A:A.147, A:K.148 Water bridges: A:S.18, A:D.31, A:E.32, A:Y.33, 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
A

GTPase KRas

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