SMTL ID : 9i7y.3 (2 other biounits)

Crystal Structure of KRasG13C in Complex with Nucleotide-based Covalent Inhibitor 7b

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

1 x 01: [(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)-4-oxidanyl-2-[[oxidanyl(phosphonooxy)phosphoryl]oxymethyl]oxolan-3-yl] (3~{S})-3-(propanoylamino)piperidine-1-carboxylate

01.1: 17 residues within 4Å: Chain A: A.13, G.14, C.15, V.16, G.17, K.18, S.19, A.20, F.30, N.118, K.119, D.121, L.122, S.147, A.148, K.149 Ligands: MG.2 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:C.15, A:V.16, A:G.17, A:K.18, A:S.19, A:A.20, A:N.118, A:K.119, A:K.119, A:S.147, A:A.148, A:K.149 Water bridges: A:S.19, A:S.19 Salt bridges: A:K.18, A:D.121 pi-Stacking: A:F.30, A:F.30

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.19, D.59 Ligands: 01.1 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.19, H2O.1, H2O.1, H2O.2, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kirschner, T. et al., Targeting KRAS G13C with cyclic linker based inhibitors to explore warhead orientation. Sci Rep (2025)

Release Date

2025-11-12

Peptides

Isoform 2B of GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Isoform 2B of GTPase KRas

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