SMTL ID : 4lv6.3 (2 other biounits)

Crystal Structure of small molecule disulfide 4 covalently bound to K-Ras G12C

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: S.18, Y.33, P.35, A.60 Ligands: GDP.4 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 CA.2: 1 residues within 4Å: Chain A: G.139 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:G.139, H2O.1, H2O.1, H2O.1, H2O.2

1 x 20H: 1-[(2,4-dichlorophenoxy)acetyl]-N-(2-sulfanylethyl)piperidine-4-carboxamide(Non-covalent)

20H.3: 22 residues within 4Å: Chain A: V.8, V.10, G.11, A.12, C.13, G.14, K.17, P.35, T.59, A.60, G.61, Q.62, E.63, E.64, R.69, Y.72, M.73, F.79, Y.97, Q.100, I.101 Ligands: GDP.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.59, A:R.69 Hydrogen bonds: A:G.61 Water bridges: A:G.11 Halogen bonds: A:Y.97

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

GDP.4: 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: CA.1, 20H.3 24 PLIP interactions: 24 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:S.18, A:A.19, A:D.31, A:D.31, A:Y.33, A:N.117, A:K.118, A:K.118, A:A.147, A:K.148 Water bridges: A:K.17, A:Y.33, A:Y.33, A:K.148 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29, A:F.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ostrem, J.M. et al., K-Ras(G12C) inhibitors allosterically control GTP affinity and effector interactions. Nature (2013)

Release Date

2013-11-27

Peptides

GTPase KRas: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

GTPase KRas

Related Entries With Identical Sequence