SMTL ID : 4emt.2 (1 other biounit)

Crystal Structure of human STING bound to c-di-GMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-tetramer

Ligands

2 x C2E: 9,9'-[(2R,3R,3AS,5S,7AR,9R,10R,10AS,12S,14AR)-3,5,10,12-TETRAHYDROXY-5,12-DIOXIDOOCTAHYDRO-2H,7H-DIFURO[3,2-D:3',2'-J][1,3,7,9,2,8]TETRAOXADIPHOSPHACYCLODODECINE-2,9-DIYL]BIS(2-AMINO-1,9-DIHYDRO-6H-PURIN-6-ONE)(Non-covalent)

C2E.1: 19 residues within 4Å: Chain A: S.9, Y.10, G.13, Y.14, R.85, Y.87, E.107, T.110, P.111, T.114 Chain B: S.9, Y.10, G.13, Y.14, Y.87, E.107, T.110, P.111, T.114 29 PLIP interactions: 14 interactions with chain B, 15 interactions with chain A Hydrogen bonds: B:T.110, B:T.110, B:T.110, B:T.114, A:R.85, A:T.110, A:T.110, A:T.110 Water bridges: B:S.9, B:Y.14, B:S.88, B:T.110, B:T.110, B:T.114, B:T.114, A:G.13, A:R.85, A:R.85, A:S.88, A:T.110, A:Q.113, A:T.114, A:T.114 Salt bridges: B:E.107, A:E.107 pi-Stacking: B:Y.14, A:Y.14 pi-Cation interactions: B:Y.14, A:Y.14 C2E.3: 19 residues within 4Å: Chain C: S.9, Y.10, G.13, Y.14, R.85, Y.87, E.107, T.110, P.111, T.114 Chain D: S.9, Y.10, G.13, Y.14, Y.87, E.107, T.110, P.111, T.114 29 PLIP interactions: 17 interactions with chain C, 12 interactions with chain D Hydrogen bonds: C:R.85, C:T.110, C:T.110, C:T.110, C:T.114, D:T.110, D:T.110, D:T.110 Water bridges: C:G.13, C:Y.14, C:R.85, C:R.85, C:S.88, C:T.110, C:T.110, C:Q.113, C:T.114, D:S.9, D:S.88, D:T.110, D:T.110, D:T.114, D:T.114 Salt bridges: C:E.107, D:E.107 pi-Stacking: C:Y.14, D:Y.14 pi-Cation interactions: C:Y.14, D:Y.14

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain B: A.165, D.167 Chain D: D.52, E.163 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D, 2 Ligand-Water interactions Metal complexes: B:A.165, B:D.167, D:D.52, H2O.178, H2O.400 CA.4: 4 residues within 4Å: Chain B: D.52, E.163 Chain D: A.165, D.167 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: D:A.165, D:D.167, B:D.52, H2O.122, H2O.456

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shu, C. et al., Structure of STING bound to cyclic di-GMP reveals the mechanism of cyclic dinucleotide recognition by the immune system. Nat.Struct.Mol.Biol. (2012)

Release Date

2012-06-13

Peptides

Transmembrane protein 173: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Transmembrane protein 173

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