SMTL ID : 7sii.1

Human STING bound to both cGAMP and 1-[(2-chloro-6-fluorophenyl)methyl]-3,3-dimethyl-2-oxo-N-[(2,4,6-trifluorophenyl)methyl]-2,3-dihydro-1H-indole-6-carboxamide (Compound 53)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

2 x 9IM: 1-[(2-chloro-6-fluorophenyl)methyl]-3,3-dimethyl-2-oxo-N-[(2,4,6-trifluorophenyl)methyl]-2,3-dihydro-1H-indole-6-carboxamide(Non-covalent)

9IM.1: 23 residues within 4Å: Chain A: Y.46, L.49, H.50, S.53, Y.106, N.111, V.113, G.114, P.115, M.120, L.123, L.124 Chain B: R.45, Y.46, L.47, L.49, H.50, S.53, Y.106, W.119, M.120, L.123, L.124 12 PLIP interactions: 7 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:H.50, A:V.113, A:L.123, B:L.49, B:L.49, B:H.50 Hydrogen bonds: A:Y.106, A:N.111 pi-Cation interactions: A:H.50, A:H.50 pi-Stacking: B:H.50 Halogen bonds: B:Y.106 9IM.3: 23 residues within 4Å: Chain C: Y.46, L.49, H.50, S.53, Y.106, N.111, V.113, G.114, P.115, M.120, L.123, L.124 Chain D: R.45, Y.46, L.47, L.49, H.50, S.53, Y.106, W.119, M.120, L.123, L.124 13 PLIP interactions: 7 interactions with chain C, 6 interactions with chain D Hydrophobic interactions: C:H.50, C:V.113, C:L.123, D:L.49, D:L.49, D:H.50 Hydrogen bonds: C:Y.106, C:N.111, D:Y.106 pi-Cation interactions: C:H.50, C:H.50 pi-Stacking: D:H.50 Halogen bonds: D:Y.106

2 x 1SY: cGAMP(Non-covalent)

1SY.2: 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, E.260, T.263, P.264, T.267 Chain B: S.162, Y.163, G.166, Y.167, R.232, A.233, I.235, R.238, V.239, Y.240, S.241, T.263, P.264, T.267 16 PLIP interactions: 7 interactions with chain A, 9 interactions with chain B Hydrogen bonds: A:S.162, A:R.238, A:T.263, A:T.263, A:T.267, B:R.232, B:R.238, B:R.238, B:R.238, B:V.239, B:T.263, B:T.267 Salt bridges: A:R.238, B:R.238 pi-Cation interactions: A:R.238, B:R.238 1SY.4: 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, T.263, P.264, T.267 Chain D: S.162, Y.163, G.166, Y.167, R.232, A.233, I.235, R.238, V.239, Y.240, S.241, T.263, P.264, T.267 16 PLIP interactions: 7 interactions with chain C, 9 interactions with chain D Hydrogen bonds: C:S.162, C:R.238, C:T.263, C:T.263, C:T.267, D:R.232, D:R.238, D:R.238, D:R.238, D:V.239, D:T.263, D:T.267 Salt bridges: C:R.238, D:R.238 pi-Cation interactions: C:R.238, D:R.238

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lu, D. et al., Activation of STING by targeting a pocket in the transmembrane domain. Nature (2022)

Release Date

2022-02-02

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.
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Stimulator of interferon genes protein

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