SMTL ID : 4lyf.1

Crystal Structure of small molecule vinylsulfonamide 8 covalently bound to K-Ras G12C

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-trimer

Ligands

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

GDP.1: 18 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 22 PLIP interactions: 22 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:D.31, A:N.117, A:K.118, A:K.118, A:S.146, A:A.147, A:K.148 Water bridges: A:K.17, A:K.17, A:S.18 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29, A:F.29 GDP.3: 17 residues within 4Å: Chain B: A.12, C.13, G.14, V.15, G.16, K.17, S.18, A.19, F.29, V.30, N.117, K.118, D.120, L.121, S.146, A.147, K.148 18 PLIP interactions: 18 interactions with chain B Hydrogen bonds: B:G.14, B:V.15, B:G.16, B:K.17, B:S.18, B:A.19, B:N.117, B:K.118, B:K.118, B:S.146, B:A.147, B:K.148 Water bridges: B:K.17, B:S.18 Salt bridges: B:K.17, B:D.120 pi-Stacking: B:F.29, B:F.29 GDP.4: 18 residues within 4Å: Chain C: A.12, C.13, G.14, V.15, G.16, K.17, S.18, A.19, F.29, V.30, A.60, N.117, K.118, D.120, L.121, S.146, A.147, K.148 19 PLIP interactions: 19 interactions with chain C Hydrogen bonds: C:G.14, C:V.15, C:G.16, C:K.17, C:S.18, C:A.19, C:N.117, C:K.118, C:K.118, C:A.147, C:K.148 Water bridges: C:K.17, C:K.17, C:S.18, C:S.18 Salt bridges: C:K.17, C:D.120 pi-Stacking: C:F.29, C:F.29

1 x 21C: N-{1-[N-(4,5-dichloro-2-hydroxyphenyl)glycyl]piperidin-4-yl}ethanesulfonamide(Covalent)

21C.2: 14 residues within 4Å: Chain B: V.8, V.9, V.10, G.11, A.12, C.13, K.17, T.59, E.63, E.64, R.69, Y.72, M.73, Y.97 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:V.10, B:E.63 Hydrogen bonds: B:G.11, B:G.11, B:E.63 Water bridges: B:K.17, B:R.69, B:R.69 Halogen bonds: B:R.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ostrem, J.M. et al., K-Ras(G12C) inhibitors allosterically control GTP affinity and effector interactions. Nature (2013)

Release Date

2013-11-27

Peptides

GTPase KRas: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

GTPase KRas

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