SMTL ID : 8v3a.2 (1 other biounit)

Crystal structure of KRAS-G12C (GDP-bound) in complex with BBO-8520

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.67 Å

Oligo State

monomer

Ligands

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

GDP.1: 22 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, E.32, Y.33, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: MG.2, Y8N.3 25 PLIP interactions: 25 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:V.30, A:E.32, A:E.32, A:Y.33, A:Y.33, 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, A:S.18 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29, A:F.29

1 x MG: MAGNESIUM ION(Non-covalent)

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

1 x Y8N: BBO-8520 (bound form)(Covalent)

Y8N.3: 23 residues within 4Å: Chain A: V.10, G.11, C.13, K.17, P.35, T.59, A.60, G.61, E.63, E.64, Y.65, R.69, D.70, M.73, K.89, D.93, H.96, Y.97, Q.100, I.101, R.103, V.104 Ligands: GDP.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.35, A:Y.65, A:Q.100, A:I.101 Hydrogen bonds: A:K.17, A:E.64, A:E.64 Water bridges: A:Y.97 Salt bridges: A:E.63

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Maciag, A.E. et al., Discovery of BBO-8520, a first-in-class direct and covalent dual inhibitor of GTP-bound (ON) and GDP-bound (OFF) KRASG12C. Cancer Discov (2024)

Release Date

2024-12-18

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GTPase KRas

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