SMTL ID : 7uyz.1

Structure of Ternary Complex of cGAS with dsDNA and Bound 5 -pppG(2 ,5 )pG

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.49 Å

Oligo State

homo-dimer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.68, D.70 Ligands: MG.2, GTP.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.68, A:D.70, H2O.1 MG.2: 6 residues within 4Å: Chain A: E.68, D.70, D.164 Ligands: MG.1, 5GP.4, GTP.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.68, A:D.70, A:D.164 MG.6: 4 residues within 4Å: Chain B: E.68, D.70 Ligands: MG.7, GTP.10 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.68, B:D.70, H2O.3 MG.7: 5 residues within 4Å: Chain B: E.68, D.70, D.164 Ligands: MG.6, GTP.10 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.68, B:D.70, B:D.164

2 x ZN: ZINC ION(Non-covalent)

ZN.3: 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

2 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.4: 9 residues within 4Å: Chain A: E.68, K.145, G.147, K.266, F.275, C.276, S.277 Ligands: MG.2, GTP.5 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.145, A:K.145, A:G.147, A:K.266, A:S.277, A:S.277 Salt bridges: A:E.68 5GP.9: 8 residues within 4Å: Chain B: E.68, K.145, K.207, K.266, F.275, C.276, S.277 Ligands: GTP.10 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.145, B:S.277, B:S.277 Salt bridges: B:E.68, B:K.207

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.5: 13 residues within 4Å: Chain A: G.55, S.56, K.62, E.68, D.70, D.164, K.259, C.276, S.277, Y.278 Ligands: MG.1, MG.2, 5GP.4 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.56, A:S.56, A:S.56, A:D.70, A:S.277 Water bridges: A:Y.57, A:R.221, A:E.263, A:E.263 Salt bridges: A:K.259, A:K.259 pi-Stacking: A:Y.278 GTP.10: 14 residues within 4Å: Chain B: G.55, S.56, K.62, E.68, D.70, K.207, R.221, K.259, C.276, S.277, Y.278 Ligands: MG.6, MG.7, 5GP.9 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:S.56, B:S.56, B:S.56, B:K.207, B:R.221, B:S.277, B:Y.278 Water bridges: B:Y.57, B:Y.57, B:S.225, B:E.228 Salt bridges: B:K.259, B:K.259 pi-Stacking: B:Y.278

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

2023-05-10

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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