SMTL ID : 9j2x.1

Human cGAS catalytic domain bound with RU.521

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

homo-dimer

Ligands

2 x AEV: 2-(4,5-dichloro-1H-benzimidazol-2-yl)-5-methyl-4-[(1R)-3-oxo-1,3-dihydro-2-benzofuran-1-yl]-1,2-dihydro-3H-pyrazol-3-one(Non-covalent)

AEV.1: 14 residues within 4Å: Chain A: V.62, K.63, D.71, P.150, T.165, K.206, R.220, E.262, K.265, S.278, S.279, Y.280, K.283 Ligands: LLS.2 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:V.62, A:K.63, A:P.150, A:Y.280 Hydrogen bonds: A:S.279, A:S.279, A:Y.280 Salt bridges: A:K.206, A:R.220 pi-Cation interactions: A:K.265 AEV.5: 15 residues within 4Å: Chain B: V.62, K.63, D.71, S.149, P.150, T.165, K.206, R.220, E.262, K.265, S.278, S.279, Y.280, K.283 Ligands: LLS.4 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:V.62, B:K.63, B:Y.280 Hydrogen bonds: B:S.279, B:S.279, B:Y.280 Salt bridges: B:K.206, B:R.220 pi-Cation interactions: B:K.265

2 x LLS: (3~{S})-3-[1-[4,5-bis(chloranyl)-1~{H}-benzimidazol-2-yl]-3-methyl-5-oxidanyl-pyrazol-4-yl]-3~{H}-2-benzofuran-1-one(Non-covalent)

LLS.2: 15 residues within 4Å: Chain A: V.62, D.71, A.91, P.150, T.165, K.206, R.220, L.221, S.222, F.223, S.224, Y.280, N.326, I.329 Ligands: AEV.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.62, A:P.150, A:Y.280 Hydrogen bonds: A:R.220, A:R.220 Salt bridges: A:K.206, A:R.220 pi-Stacking: A:Y.280 pi-Cation interactions: A:R.220 LLS.4: 14 residues within 4Å: Chain B: D.71, A.91, S.149, P.150, T.165, K.206, R.220, L.221, S.222, F.223, Y.280, N.326, I.329 Ligands: AEV.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.220, B:R.220 Salt bridges: B:K.206, B:R.220 pi-Stacking: B:Y.280 pi-Cation interactions: B:R.220

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 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.6: 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

Zhao, W.F. et al., Discovery of novel cGAS inhibitors. To Be Published

Release Date

2025-06-04

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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