SMTL ID : 9mdc.1

Crystal Structure of human cyclic GMP-AMP synthase (cGAS) in complex with compound 36; (S)-(6,7-dichloro-1-methyl-1,3,4,5-tetrahydro-2H-pyrido[4,3-b]indol-2-yl)(5-(2-hydroxyethoxy)pyrimidin-2-yl)methanone

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.234, C.240, C.241, C.248 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.234, A:C.240, A:C.241, A:C.248

1 x 01: [(1S)-6,7-dichloro-1-methyl-1,3,4,5-tetrahydro-2H-pyrido[4,3-b]indol-2-yl][5-(2-hydroxyethoxy)pyrimidin-2-yl]methanone

01.2: 15 residues within 4Å: Chain A: E.69, D.71, G.148, S.149, P.150, A.151, D.163, T.165, V.204, K.206, R.220, L.221, S.222 Ligands: ANP.3, MN.4 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.150, A:A.151 Water bridges: A:G.148, A:K.206 Salt bridges: A:D.163 Halogen bonds: A:L.221

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.3: 15 residues within 4Å: Chain A: G.56, S.57, K.63, E.69, D.71, R.220, S.224, E.227, K.258, S.279, Y.280, K.283 Ligands: 01.2, MN.4, MN.5 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.57, A:S.57, A:K.258, A:K.258, A:S.279, A:K.283, A:K.283 Water bridges: A:Y.58, A:K.63, A:R.220, A:R.220, A:K.258, A:S.279, A:Y.280 pi-Stacking: A:Y.280, A:Y.280

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.4: 6 residues within 4Å: Chain A: E.69, D.71, D.163 Ligands: 01.2, ANP.3, MN.5 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.69, A:D.71, A:D.163 MN.5: 5 residues within 4Å: Chain A: S.57, E.69, D.71 Ligands: ANP.3, MN.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.69, A:D.71, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cyr, P. et al., Discovery of Potent and Orally Bioavailable Pyrimidine Amide cGAS Inhibitors via Structure-Guided Hybridization. Acs Med.Chem.Lett. (2024)

Release Date

2025-01-01

Peptides

Cyclic GMP-AMP synthase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cyclic GMP-AMP synthase

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