SMTL ID : 7rp4.2 (1 other biounit)

Crystal structure of KRAS G12C in complex with GNE-1952

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

monomer

Ligands

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.1: 21 residues within 4Å: Chain A: G.11, C.13, K.17, P.35, T.59, A.60, G.61, Q.62, E.63, E.64, Y.65, S.66, R.69, D.70, M.73, H.96, Y.97, Q.100, R.103 Ligands: GDP.2, GOL.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.97, A:Q.100 Hydrogen bonds: A:K.17, A:S.66, A:D.70, A:Y.97, A:R.103 pi-Stacking: A:Y.97, A:Y.97

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

GDP.2: 19 residues within 4Å: Chain A: A.12, G.14, V.15, G.16, K.17, S.18, A.19, F.29, D.31, Y.33, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: MKZ.1, MG.3 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:G.14, A:V.15, A:G.16, A:K.17, A:S.18, A:A.19, A:D.31, A:D.31, A:N.117, A:K.118, A:K.118, A:S.146, A:A.147, A:K.148 Water bridges: A:S.18, A:S.18, A:D.120, A:K.148 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29, A:F.29

1 x MG: MAGNESIUM ION(Non-covalent)

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

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: Y.65, H.96, Q.100 Ligands: MKZ.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.100

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davies, C.W. et al., Conformation-locking antibodies for the discovery and characterization of KRAS inhibitors. Nat.Biotechnol. (2022)

Release Date

2022-03-16

Peptides

Isoform 2B of GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Isoform 2B of GTPase KRas

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