SMTL ID : 6dxg.1

amidobenzimidazole (ABZI) STING agonists

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.91 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 3 residues within 4Å: Chain A: D.53, G.55, E.164 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.53, A:E.164, A:E.164, H2O.2, H2O.2 CA.3: 3 residues within 4Å: Chain B: D.53, G.55, E.164 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.53, B:E.164, B:E.164, H2O.5, H2O.5

2 x HGJ: 2-[(1-ethyl-3-methyl-1H-pyrazole-5-carbonyl)amino]-1-[(2R)-2-hydroxy-2-phenylethyl]-1H-benzimidazole-5-carboxamide(Non-covalent)

HGJ.2: 14 residues within 4Å: Chain A: L.7, S.10, Y.11, G.14, Y.15, Y.88, S.89, N.90, E.108, T.111, P.112 Chain B: S.10, T.111 Ligands: HGJ.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.7, A:Y.11, A:Y.15, A:Y.88 Hydrogen bonds: A:S.89, A:S.89, A:T.111 Water bridges: A:G.14 HGJ.4: 14 residues within 4Å: Chain A: S.10, T.111 Chain B: L.7, S.10, Y.11, G.14, Y.15, Y.88, S.89, N.90, E.108, T.111, P.112 Ligands: HGJ.2 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.7, B:Y.11, B:Y.15, B:Y.88 Hydrogen bonds: B:S.89, B:S.89, B:T.111 Water bridges: B:G.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ramanjulu, J.M. et al., Design of amidobenzimidazole STING receptor agonists with systemic activity. Nature (2018)

Release Date

2018-11-07

Peptides

Stimulator of interferon protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Stimulator of interferon protein

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