SMTL ID : 8ime.1

Human cGAS catalytic domain bound with baicalin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.63 Å

Oligo State

homo-dimer

Ligands

2 x 0XE: 5,6-dihydroxy-4-oxo-2-phenyl-4H-chromen-7-yl beta-D-glucopyranosiduronic acid(Non-covalent)

0XE.1: 14 residues within 4Å: Chain A: V.62, M.73, R.220, S.222, S.224, D.275, K.276, S.278, S.279, Y.280, H.281, K.283, F.332, L.334 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:Y.280 Hydrogen bonds: A:L.221, A:S.222, A:S.224, A:N.326 Water bridges: A:F.223 Salt bridges: A:R.220, A:K.283, A:K.283 pi-Stacking: A:Y.280 pi-Cation interactions: A:R.220 0XE.3: 15 residues within 4Å: Chain B: V.62, M.73, R.220, L.221, S.222, S.224, K.276, S.278, S.279, Y.280, H.281, K.283, N.326, F.332, L.334 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:L.221, B:S.222, B:S.222, B:S.224, B:S.278, B:Y.280, B:N.326 Water bridges: B:R.220, B:R.220, B:Y.280, B:Y.280 Salt bridges: B:K.283 pi-Stacking: B:Y.280 pi-Cation interactions: B:R.220

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.234, C.240, C.241, C.248 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.234, A:C.240, A:C.241, A:C.248 ZN.4: 4 residues within 4Å: Chain B: H.234, C.240, C.241, C.248 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.234, B:C.240, B:C.241, B:C.248

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, J. et al., Discovery of novel cGAS inhibitors based on natural flavonoids. Bioorg.Chem. (2023)

Release Date

2024-01-03

Peptides

Cyclic GMP-AMP synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cyclic GMP-AMP synthase

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