SMTL ID : 8g47.1

KRAS G12C complex with GDP and AMG 510 imaged on a cryo-EM imaging scaffold

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 7 residues within 4Å: Chain B: S.37, D.53, P.54, I.56, D.77, A.79 Ligands: GDP.2 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.37

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

GDP.2: 19 residues within 4Å: Chain B: C.32, G.33, G.35, K.36, S.37, A.38, F.48, D.50, E.51, Y.52, N.136, K.137, D.139, L.140, S.165, A.166, K.167 Ligands: MG.1, MOV.3 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:G.33, B:V.34, B:G.35, B:K.36, B:S.37, B:A.38, B:D.50, B:E.51, B:N.136, B:K.137, B:K.137, B:A.166, B:K.167 Salt bridges: B:K.36, B:D.139 pi-Stacking: B:F.48, B:F.48

1 x MOV: AMG 510 (bound form)(Covalent)

MOV.3: 18 residues within 4Å: Chain B: V.29, G.30, A.31, C.32, K.36, P.54, T.78, A.79, G.80, Q.81, E.83, R.88, M.92, Y.116, Q.119, I.120, V.123 Ligands: GDP.2 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Y.116, B:Q.119, B:I.120, B:V.123 Hydrogen bonds: B:K.36 pi-Stacking: B:Y.116 pi-Cation interactions: B:R.88

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Castells-Graells, R. et al., Cryo-EM structure determination of small therapeutic protein targets at 3 angstrom -resolution using a rigid imaging scaffold. Proc.Natl.Acad.Sci.USA (2023)

Release Date

2023-08-09

Peptides

RCG-33 - Cryo-EM imaging scaffold subunit B fused to DARPin: A
GTPase KRas: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

RCG-33 - Cryo-EM imaging scaffold subunit B fused to DARPin

GTPase KRas

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