SMTL ID : 8afc.1 (1 other biounit)

CRYSTAL STRUCTURE OF KRAS-G12C IN COMPLEX WITH COMPOUND 12

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

monomer

Ligands

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

GDP.1: 19 residues within 4Å: Chain A: A.11, 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.2 25 PLIP interactions: 25 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:D.30, A:D.30, A:N.116, A:K.117, A:K.117, A:A.146, A:K.147, A:K.147 Water bridges: A:K.16, A:K.16, A:S.17, A:S.17, A:S.17, A:S.17 Salt bridges: A:K.16, A:D.119 pi-Stacking: A:F.28, A:F.28

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.17, D.33 Ligands: GDP.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.17, H2O.1, H2O.1, H2O.1, H2O.1

1 x LXK: 2-azanyl-4,4-dimethyl-6,7-dihydro-5~{H}-1-benzothiophene-3-carbonitrile(Non-covalent)

LXK.3: 11 residues within 4Å: Chain A: V.9, E.62, E.63, Y.64, R.68, D.69, M.72, Y.96, Q.99, I.100, V.103 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.9, A:E.62, A:Y.64, A:Y.96, A:Q.99, A:I.100 Hydrogen bonds: A:E.63, A:E.63 Water bridges: A:R.68

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 2 residues within 4Å: Chain A: S.65, A.66 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Broker, J. et al., Fragment Optimization of Reversible Binding to the Switch II Pocket on KRAS Leads to a Potent, In Vivo Active KRAS G12C Inhibitor. J.Med.Chem. (2022)

Release Date

2022-11-09

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase KRas

Related Entries With Identical Sequence