SMTL ID : 4l9w.2 (1 other biounit)

Crystal Structure of H-Ras G12C, GMPPNP-bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 25 residues within 4Å: Chain A: A.16, C.17, G.18, V.19, G.20, K.21, S.22, A.23, F.33, V.34, D.35, E.36, Y.37, P.39, T.40, A.64, G.65, N.121, K.122, D.124, L.125, S.150, A.151, K.152 Ligands: MG.2 27 PLIP interactions: 27 interactions with chain A Hydrogen bonds: A:G.18, A:V.19, A:G.20, A:K.21, A:K.21, A:S.22, A:A.23, A:V.34, A:Y.37, A:T.40, A:T.40, A:G.65, A:N.121, A:K.122, A:K.122, A:A.151, A:K.152 Water bridges: A:S.22, A:S.22, A:D.38, A:T.40, A:Q.66, A:K.152, A:K.152 Salt bridges: A:D.124 pi-Stacking: A:F.33, A:F.33 GNP.5: 25 residues within 4Å: Chain B: A.16, C.17, G.18, V.19, G.20, K.21, S.22, A.23, F.33, V.34, D.35, E.36, Y.37, P.39, T.40, A.64, G.65, N.121, K.122, D.124, L.125, S.150, A.151, K.152 Ligands: MG.6 29 PLIP interactions: 29 interactions with chain B Hydrogen bonds: B:G.18, B:V.19, B:G.20, B:K.21, B:K.21, B:S.22, B:A.23, B:V.34, B:Y.37, B:Y.37, B:T.40, B:G.65, B:N.121, B:K.122, B:K.122, B:A.151, B:K.152 Water bridges: B:S.22, B:S.22, B:D.38, B:T.40, B:T.40, B:Q.66, B:Q.66, B:K.152, B:K.152 Salt bridges: B:D.124 pi-Stacking: B:F.33, B:F.33

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.22, T.40 Ligands: GNP.1 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.22, A:T.40, H2O.1, H2O.1 MG.6: 3 residues within 4Å: Chain B: S.22, T.40 Ligands: GNP.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.22, B:T.40, H2O.6, H2O.6

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: F.33, D.35 Chain B: E.36, D.38 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: A:F.33, A:D.35, B:E.36, H2O.1, H2O.3 CA.4: 1 residues within 4Å: Chain A: D.159 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.159, H2O.6 CA.7: 4 residues within 4Å: Chain A: E.36, D.38 Chain B: F.33, D.35 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:F.33, B:D.35, A:E.36, H2O.7, H2O.9 CA.8: 1 residues within 4Å: Chain B: D.159 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.159, H2O.11

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 HRas: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

GTPase HRas

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