SMTL ID : 8vgq.1

CryoEM structure of GNE-1952-alkylated KRAS G12C in complex with engineered conformationally rigid Fab 2H11.4DS

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x 01: 1-{4-[(7M)-6-methyl-7-(5-methyl-2H-indazol-4-yl)quinazolin-4-yl]piperazin-1-yl}propan-1-one

01.1: 14 residues within 4Å: Chain A: G.11, C.13, K.17, G.61, Q.62, E.63, E.64, Y.65, R.69, D.70, M.73, H.96, Y.97, Q.100 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.97, A:Q.100 Hydrogen bonds: A:K.17, A:Y.65, A:D.70

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

GDP.2: 15 residues within 4Å: Chain A: G.14, G.16, K.17, S.18, A.19, F.29, D.31, N.117, K.118, D.120, L.121, S.146, A.147, K.148 Ligands: MG.3 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: 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:N.117, A:K.118, A:K.118, A:A.147, A:K.148 Salt bridges: A:K.17, A:D.120 pi-Stacking: A:F.29

1 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 2 residues within 4Å: Chain A: S.18 Ligands: GDP.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.18

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kung, J.E. et al., Disulfi de constrained Fabs overcome target size limitation for high-resolution single-particle cryo-EM. Biorxiv (2024)

Release Date

2024-10-30

Peptides

GTPase KRas: A
Fab 2H11.4DS heavy chain: B
Fab 2H11.4DS light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

GTPase KRas

Fab 2H11.4DS heavy chain

Fab 2H11.4DS light chain

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