6S26

Crystal structure of human wild type STING in complex with 2'-3'-cyclic-GMP-7-deaza-AMP

Summary for 6S26

• Entry DOI: 10.2210/pdb6s26/pdb
• Descriptor: Stimulator of interferon protein, 2-azanyl-9-[(1~{R},6~{R},8~{R},9~{R},10~{S},15~{R},17~{R},18~{R})-8-(4-azanylpyrrolo[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]-1~{H}-purin-6-one (3 entities in total)
• Functional Keywords: activator, membrane protein, immune system, receptor, protein binding
• Biological source: Homo sapiens (Human)
• Total number of polymer chains: 2
• Total formula weight: 47051.55

Authors

Boura, E.,Smola, M.,Brynda, J. (deposition date: 2019-06-20, release date: 2019-11-27, Last modification date: 2024-01-24)

Primary citation

Novotna, B.,Vanekova, L.,Zavrel, M.,Budesinsky, M.,Dejmek, M.,Smola, M.,Gutten, O.,Tehrani, Z.A.,Pimkova Polidarova, M.,Brazdova, A.,Liboska, R.,Stepanek, I.,Vavrina, Z.,Jandusik, T.,Nencka, R.,Rulisek, L.,Boura, E.,Brynda, J.,Pav, O.,Birkus, G.
Enzymatic Preparation of 2'-5',3'-5'-Cyclic Dinucleotides, Their Binding Properties to Stimulator of Interferon Genes Adaptor Protein, and Structure/Activity Correlations.
J.Med.Chem., 62:10676-10690, 2019

PubMed Abstract: Cyclic dinucleotides are second messengers in the cyclic GMP-AMP synthase (cGAS)-stimulator of interferon genes (STING) pathway, which plays an important role in recognizing tumor cells and viral or bacterial infections. They bind to the STING adaptor protein and trigger expression of cytokines via TANK binding kinase 1 (TBK1)/interferon regulatory factor 3 (IRF3) and inhibitor of nuclear factor-κB (IκB) kinase (IKK)/nuclear factor-κB (NFκB) signaling cascades. In this work, we describe an enzymatic preparation of 2'-5',3'-5'-cyclic dinucleotides (2'3'CDNs) with use of cyclic GMP-AMP synthases (cGAS) from human, mouse, and chicken. We profile substrate specificity of these enzymes by employing a small library of nucleotide-5'-triphosphate (NTP) analogues and use them to prepare 33 2'3'CDNs. We also determine affinity of these CDNs to five different STING haplotypes in cell-based and biochemical assays and describe properties needed for their optimal activity toward all STING haplotypes. Next, we study their effect on cytokine and chemokine induction by human peripheral blood mononuclear cells (PBMCs) and evaluate their cytotoxic effect on monocytes. Additionally, we report X-ray crystal structures of two new CDNs bound to STING protein and discuss structure-activity relationship by using quantum and molecular mechanical (QM/MM) computational modeling.

PubMed: 31715099
DOI: 10.1021/acs.jmedchem.9b01062

Experimental method

X-RAY DIFFRACTION (2.05 Å)