SMTL ID : 8sj2.1

Structure of ternary complex of cGAS with dsDNA and bound ATP and 2'-dGTP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.23 Å

Oligo State

homo-dimer

Ligands

2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 14 residues within 4Å: Chain A: G.55, S.56, K.62, E.68, D.70, R.221, S.225, E.228, K.259, S.277, Y.278, K.281 Ligands: DGT.2, MG.3 18 PLIP interactions: 18 interactions with chain A Hydrogen bonds: A:S.56, A:S.56, A:S.56, A:R.221, A:S.225, A:S.277, A:K.281, A:K.281 Water bridges: A:Y.57, A:Y.57, A:K.62, A:K.259, A:Y.278 Salt bridges: A:K.259, A:K.259 pi-Stacking: A:Y.278, A:Y.278 pi-Cation interactions: A:R.221 ATP.5: 13 residues within 4Å: Chain B: G.55, S.56, E.68, D.70, R.221, S.225, E.228, K.259, S.277, Y.278, K.281 Ligands: DGT.6, MG.7 17 PLIP interactions: 17 interactions with chain B Hydrogen bonds: B:S.56, B:S.56, B:S.56, B:R.221, B:R.221, B:S.225, B:E.228, B:S.277, B:K.281, B:K.281 Water bridges: B:Y.57, B:Y.278, B:Y.278 Salt bridges: B:K.259, B:K.259 pi-Stacking: B:Y.278, B:Y.278

2 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

DGT.2: 15 residues within 4Å: Chain A: E.68, D.70, M.72, P.146, G.147, S.148, P.149, D.164, I.166, R.221, S.223, S.225, D.273, C.276 Ligands: ATP.1 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:I.166 Hydrogen bonds: A:T.54, A:T.54, A:D.164, A:R.221, A:R.221, A:S.223, A:S.223, A:S.225, A:F.275 Water bridges: A:G.147, A:R.221, A:F.224 DGT.6: 14 residues within 4Å: Chain B: T.54, M.72, P.146, G.147, S.148, P.149, A.150, D.164, I.166, K.207, R.221, S.223, S.225 Ligands: ATP.5 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:T.54, B:T.54, B:D.164, B:R.221, B:R.221, B:S.223, B:S.223, B:S.225 Water bridges: B:F.224 Salt bridges: B:K.207

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: S.56, E.68, D.70 Ligands: ATP.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.68, A:D.70, H2O.1 MG.7: 3 residues within 4Å: Chain B: E.68, D.70 Ligands: ATP.5 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.68, B:D.70, H2O.3

2 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: H.235, C.241, C.242, C.249 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.235, A:C.241, A:C.242, A:C.249 ZN.8: 4 residues within 4Å: Chain B: H.235, C.241, C.242, C.249 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.235, B:C.241, B:C.242, B:C.249

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, S. et al., The structural basis for 2'-5'/3'-5'-cGAMP synthesis by cGAS. Nat Commun (2024)

Release Date

2024-04-24

Peptides

Cyclic GMP-AMP synthase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Cyclic GMP-AMP synthase

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