SMTL ID : 7a1y.1

KRASG12C GDP form in complex with Cpd2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

1 x QWH: ~{N}-(3-bromanyl-2,6-dimethyl-pyridin-4-yl)propanamide(Covalent)

QWH.1: 8 residues within 4Å: Chain A: C.13, G.14, P.35, T.36, A.60, G.61, Y.65 Ligands: GDP.2 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.35, A:T.36, A:Y.65, A:Y.65 Hydrogen bonds: A:A.60

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

GDP.2: 21 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, Y.33, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: QWH.1, MG.3 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:A.12, A:G.14, A:V.15, A:G.16, A:K.17, A:S.18, A:A.19, A:V.30, A:N.117, A:K.118, A:K.118, A:A.147, A:K.148 Water bridges: A:S.18, A:S.18, A:Y.33 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.2, H2O.2

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

SO4.4: 3 residues within 4Å: Chain A: H.28, V.30, D.31 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.31 Salt bridges: A:H.28

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mathieu, M. et al., KRAS G12C fragment screening renders new binding pockets. Small Gtpases (2022)

Release Date

2021-10-13

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

GTPase KRas

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