SMTL ID : 8a2i.1

human STING in complex with 2'-3'-cyclic-GMP-7-deaza(4-(2-naphthyl)phenyl)-AMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-dimer

Ligands

1 x KWF: 2-azanyl-9-[(1~{R},6~{R},8~{R},9~{R},10~{S},15~{R},17~{R},18~{R})-8-[4-azanyl-5-(4-naphthalen-2-ylphenyl)pyrrolo[2,3-d]pyrimidin-7-yl]-3,9,12,18-tetrakis(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13,16-hexaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-3~{H}-purin-6-one(Non-covalent)

KWF.1: 25 residues within 4Å: Chain A: S.24, Y.25, G.28, Y.29, I.97, R.100, Y.102, S.103, E.122, T.125, P.126 Chain B: S.24, Y.25, G.28, Y.29, R.94, A.95, G.96, K.98, R.100, V.101, Y.102, T.125, P.126, T.129 29 PLIP interactions: 14 interactions with chain B, 15 interactions with chain A Hydrophobic interactions: B:R.94, B:A.95, B:R.100, B:Y.102, B:Y.102 Hydrogen bonds: B:R.94, B:V.101, B:T.125, B:T.129, A:S.24, A:R.100, A:T.125, A:T.125, A:T.125 Water bridges: B:S.24, B:S.24, B:T.125, B:T.129, A:R.94, A:R.100, A:T.125, A:T.125, A:T.129 pi-Cation interactions: B:R.94, A:Y.29, A:R.100 Salt bridges: A:R.100, A:E.122 pi-Stacking: A:Y.29

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vavrina, Z. et al., Design, Synthesis, and Biochemical and Biological Evaluation of Novel 7-Deazapurine Cyclic Dinucleotide Analogues as STING Receptor Agonists. J.Med.Chem. (2022)

Release Date

2022-10-12

Peptides

Stimulator of interferon genes protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Stimulator of interferon genes protein

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