SMTL ID : 8flk.1

Cryo-EM structure of STING oligomer bound to cGAMP and NVS-STG2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

2 x 1SY: cGAMP(Non-covalent)

1SY.1: 28 residues within 4Å: Chain A: S.162, Y.163, G.166, Y.167, R.232, I.235, R.238, V.239, Y.240, S.241, N.242, E.260, T.263, P.264, T.267 Chain B: S.162, Y.163, G.166, Y.167, R.232, I.235, R.238, V.239, Y.240, S.241, T.263, P.264, T.267 23 PLIP interactions: 13 interactions with chain A, 10 interactions with chain B Hydrogen bonds: A:S.162, A:S.162, A:R.232, A:R.238, A:R.238, A:T.263, A:T.263, B:S.162, B:R.232, B:R.238, B:R.238, B:V.239, B:T.263, B:T.267 Salt bridges: A:R.238, A:E.260, B:R.238 pi-Stacking: A:Y.167 pi-Cation interactions: A:Y.167, A:R.238, A:R.238, B:R.238, B:R.238 1SY.3: 28 residues within 4Å: Chain C: S.162, Y.163, G.166, Y.167, R.232, I.235, R.238, V.239, Y.240, S.241, E.260, Y.261, T.263, P.264, T.267 Chain D: S.162, Y.163, G.166, Y.167, R.232, I.235, R.238, V.239, Y.240, S.241, T.263, P.264, T.267 23 PLIP interactions: 9 interactions with chain D, 14 interactions with chain C Hydrogen bonds: D:S.162, D:R.232, D:R.238, D:R.238, D:V.239, D:T.263, D:T.267, C:S.162, C:S.162, C:R.232, C:R.238, C:R.238, C:S.241, C:T.263, C:T.263 pi-Cation interactions: D:R.238, D:R.238, C:Y.167, C:R.238, C:R.238 Salt bridges: C:R.238, C:E.260 pi-Stacking: C:Y.167

2 x Y6H: 4-({[4-(2-tert-butyl-5,5-dimethyl-1,3-dioxan-2-yl)phenyl]methyl}amino)-3-methoxybenzoic acid(Non-covalent)

Y6H.2: 18 residues within 4Å: Chain A: V.48, L.51, A.52, Q.55, L.58, R.94, R.95, L.98, L.101, S.102, F.105 Chain B: L.134, L.136 Chain C: L.44, L.47 Chain D: L.130, L.134 Ligands: Y6H.4 12 PLIP interactions: 2 interactions with chain D, 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: D:L.130, D:L.134, A:V.48, A:L.51, A:L.98, A:L.98, A:F.105, B:L.136 Hydrogen bonds: A:Q.55, A:R.94 Salt bridges: A:R.94, A:R.95 Y6H.4: 17 residues within 4Å: Chain A: L.44, L.47 Chain B: L.130, L.134 Chain C: V.48, L.51, A.52, Q.55, R.94, R.95, L.98, L.101, S.102, F.105 Chain D: L.134, L.136 Ligands: Y6H.2 12 PLIP interactions: 2 interactions with chain B, 9 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: B:L.130, B:L.134, C:V.48, C:A.52, C:Q.55, C:L.98, C:L.98, C:L.101, D:L.136 Hydrogen bonds: C:Q.55 Salt bridges: C:R.94, C:R.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, J. et al., Activation of human STING by a molecular glue-like compound. Nat.Chem.Biol. (2024)

Release Date

2023-11-01

Peptides

Stimulator of interferon genes protein: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
Show / Hide

Stimulator of interferon genes protein

Related Entries With Identical Sequence