SMTL ID : 6t5v.1

KRasG12C ligand complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.31 Å

Oligo State

monomer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: S.17 Ligands: GDP.2 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.17, 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.11, C.12, G.13, V.14, G.15, K.16, S.17, A.18, F.28, V.29, D.30, Y.32, N.116, K.117, D.119, L.120, S.145, A.146, K.147 Ligands: MG.1, MKZ.3 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:A.11, A:G.13, A:V.14, A:G.15, A:K.16, A:S.17, A:A.18, A:V.29, A:N.116, A:K.117, A:K.117, A:A.146, A:K.147 Water bridges: A:S.17, A:S.17 Salt bridges: A:K.16, A:D.119 pi-Stacking: A:F.28, A:F.28

1 x MKZ: 1-[4-[6-chloranyl-7-(5-methyl-1~{H}-indazol-4-yl)quinazolin-4-yl]piperazin-1-yl]propan-1-one(Covalent)

MKZ.3: 23 residues within 4Å: Chain A: V.9, G.10, C.12, G.13, K.16, P.34, T.58, A.59, G.60, Q.61, E.62, E.63, Y.64, R.68, D.69, M.72, H.95, Y.96, Q.99, I.100, R.102, V.103 Ligands: GDP.2 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:V.9, A:P.34, A:M.72, A:Y.96, A:Q.99, A:V.103 Hydrogen bonds: A:K.16, A:D.69, A:D.69, A:Y.96, A:R.102 Water bridges: A:E.62, A:D.69, A:D.69

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kettle, J.G. et al., Structure-Based Design and Pharmacokinetic Optimization of Covalent Allosteric Inhibitors of the Mutant GTPase KRASG12C. J.Med.Chem. (2020)

Release Date

2020-02-19

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase KRas