Abstract
The cyclic dinucleotides (CDNs) cyclic diguanosine monophosphate (c-diGMP) and cyclic diadenosine monophosphate (c-diAMP) with two canonical 3′→5′ internucleotide linkages are ubiquitous second messenger molecules in bacteria, regulating a multitude of physiological processes. Recently the noncanonical CDN cyclic guanosine monophosphate-adenosine monophosphate (2′3′-cGAMP) featuring a mixed linkage, which consists of a 2′→5′ and a 3′→5′ internucleotide bond, has been identified as a signaling molecule in metazoan species in late 2012. 2′3′-cGAMP formation is biocatalyzed by cGAMP synthase (cGAS) upon sensing of cytosolic double-stranded DNA (dsDNA) and functions as an endogenous inducer of innate immunity by directly binding to and activating the adaptor protein stimulator of interferon genes (STING). Thereby 2′3′-cGAMP can stimulate interferon-β (INF-β) secretion, a major signaling pathway of host defense, which is independent of toll-like receptor (TLR) activation. Medicinal chemistry of 2′3′-cGAMP and development of corresponding analogs are still in their infancy, and only a handful of structurally related compounds are available to the scientific community. The aim of this chapter is to summarize synthetic approaches to prepare canonical and noncanonical endogenous CDNs including 2′3′-cGAMP. Furthermore, we will describe syntheses of 2′3′-cGAMP analogs bearing modifications, which will facilitate further studies of the emerging biological functions of 2′3′-cGAMP and to identify additional receptor proteins. Finally, we will review latest developments concerning 2′3′-cGAMP analogs with improved hydrolytic stability in cell cultures and in tissues, putatively qualifying for new therapeutic options on the basis of 2′3′-cGAMP signaling.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Abdul-Sater AA, Grajkowski A, Erdjument-Bromage H, Plumlee C, Levi A, Schreiber MT, Lee C, Shuman H, Beaucage SL, Schindler C (2012) The overlapping host responses to bacterial cyclic dinucleotides. Microbes Infect 14(2):188–197. doi:10.1016/j.micinf.2011.09.002
Ablasser A, Goldeck M, Cavlar T, Deimling T, Witte G, Rohl I, Hopfner KP, Ludwig J, Hornung V (2013) cGAS produces a 2′-5'-linked cyclic dinucleotide second messenger that activates STING. Nature 498(7454):380–384. doi:10.1038/nature12306
Amiot N, Giese B, Heintz K (2006) New approach for the synthesis of c-di-GMP and its analogues. Synthesis 2006(24):4230–4236. doi:10.1055/s-2006-950361
Bai Y, Yang J, Eisele LE, Underwood AJ, Koestler BJ, Waters CM, Metzger DW, Bai G (2013) Two DHH subfamily 1 proteins in Streptococcus pneumoniae possess cyclic di-AMP phosphodiesterase activity and affect bacterial growth and virulence. J Bacteriol 195(22):5123–5132. doi:10.1128/JB.00769-13
Belli SI, van Driel IR, Goding JW (1993) Identification and characterization of a soluble form of the plasma cell membrane glycoprotein PC-1 (5'-nucleotide phosphodiesterase). Eur J Biochem 217(1):421–428
Bertinetti D, Schweinsberg S, Hanke SE, Schwede F, Bertinetti O, Drewianka S, Genieser HG, Herberg FW (2009) Chemical tools selectively target components of the PKA system. BMC Chem Biol 9:3. doi:10.1186/1472-6769-9-3
Bollen M, Gijsbers R, Ceulemans H, Stalmans W, Stefan C (2000) Nucleotide pyrophosphatases/phosphodiesterases on the move. Crit Rev Biochem Mol Biol 35(6):393–432. doi:10.1080/10409230091169249
Brown RL, Bert RJ, Evans FE, Karpen JW (1993) Activation of retinal rod cGMP-gated channels: what makes for an effective 8-substituted derivative of cGMP? Biochemistry 32(38):10089–10095
Ching SM, Tan WJ, Chua KL, Lam Y (2010) Synthesis of cyclic di-nucleotidic acids as potential inhibitors targeting diguanylate cyclase. Bioorg Med Chem 18(18):6657–6665. doi:10.1016/j.bmc.2010.07.068
Cimpean A, Stefan C, Gijsbers R, Stalmans W, Bollen M (2004) Substrate-specifying determinants of the nucleotide pyrophosphatases/phosphodiesterases NPP1 and NPP2. Biochem J 381(Pt 1):71–77. doi:10.1042/BJ20040465
Civril F, Deimling T, de Oliveira Mann CC, Ablasser A, Moldt M, Witte G, Hornung V, Hopfner KP (2013) Structural mechanism of cytosolic DNA sensing by cGAS. Nature 498(7454):332–337. doi:10.1038/nature12305
Commichau FM, Dickmanns A, Gundlach J, Ficner R, Stülke J (2015) A jack of all trades: the multiple roles of the unique essential second messenger cyclic di-AMP. Mol Microbiol. doi:10.1111/mmi.13026
Corrales L, Glickman LH, McWhirter SM, Kanne DB, Sivick KE, Katibah GE, Woo SR, Lemmens E, Banda T, Leong JJ, Metchette K, Dubensky TW Jr, Gajewski TF (2015) Direct activation of STING in the tumor microenvironment leads to potent and systemic tumor regression and immunity. Cell Rep 11(7):1018–1030. doi:10.1016/j.celrep.2015.04.031
Corrigan RM, Gründling A (2013) Cyclic di-AMP: another second messenger enters the fray. Nat Rev Microbiol 11(8):513–524. doi:10.1038/nrmicro3069
Corrigan RM, Campeotto I, Jeganathan T, Roelofs KG, Lee VT, Gründling A (2013) Systematic identification of conserved bacterial c-di-AMP receptor proteins. Proc Natl Acad Sci U S A 110(22):9084–9089. doi:10.1073/pnas.1300595110
Davies BW, Bogard RW, Young TS, Mekalanos JJ (2012) Coordinated regulation of accessory genetic elements produces cyclic di-nucleotides for V. Cholerae virulence. Cell 149(2):358–370. doi:10.1016/j.cell.2012.01.053
Diner EJ, Burdette DL, Wilson SC, Monroe KM, Kellenberger CA, Hyodo M, Hayakawa Y, Hammond MC, Vance RE (2013) The innate immune DNA sensor cGAS produces a noncanonical cyclic dinucleotide that activates human STING. Cell Rep 3(5):1355–1361. doi:10.1016/j.celrep.2013.05.009
Dubensky TW Jr, Kanne DB, Leong MLL, Glickman LH, Vance RE, Lemmens EE (2014) Composotions and methods for activating “stimulator of interferon gene”-dependent signalling. WO/2014/189805
Düvel J, Bertinetti D, Möller S, Schwede F, Morr M, Wissing J, Radamm L, Zimmermann B, Genieser HG, Jänsch L, Herberg FW, Häussler S (2012) A chemical proteomics approach to identify c-di-GMP binding proteins in Pseudomonas aeruginosa. J Microbiol Methods 88(2):229–236. doi:10.1016/j.mimet.2011.11.015
Eckstein F (2014) Phosphorothioates, essential components of therapeutic oligonucleotides. Nucleic Acid Ther 24(6):374–387. doi:10.1089/nat.2014.0506
Eckstein F, Gish G (1989) Phosphorothioates in molecular biology. Trends Biochem Sci 14(3):97–100
Fu J, Kanne DB, Leong M, Glickman LH, McWhirter SM, Lemmens E, Mechette K, Leong JJ, Lauer P, Liu W, Sivick KE, Zeng Q, Soares KC, Zheng L, Portnoy DA, Woodward JJ, Pardoll DM, Dubensky TW Jr, Kim Y (2015) STING agonist formulated cancer vaccines can cure established tumors resistant to PD-1 blockade. Sci Transl Med 7(283):283ra252. doi:10.1126/scitranslmed.aaa4306
Gaffney BL, Veliath E, Zhao J, Jones RA (2010) One-flask syntheses of c-di-GMP and the [Rp, Rp] and [Rp, Sp] thiophosphate analogues. Org Lett 12(14):3269–3271. doi:10.1021/ol101236b
Gao P, Ascano M, Wu Y, Barchet W, Gaffney BL, Zillinger T, Serganov AA, Liu Y, Jones RA, Hartmann G, Tuschl T, Patel DJ (2013) Cyclic [G(2′,5′)pA(3′,5′)p] is the metazoan second messenger produced by DNA-activated cyclic GMP-AMP synthase. Cell 153(5):1094–1107. doi:10.1016/j.cell.2013.04.046
Grajkowski A, Cieslak J, Gapeev A, Schindler C, Beaucage SL (2010) Convenient synthesis of a propargylated cyclic (3′-5′) diguanylic acid and its “click” conjugation to a biotinylated azide. Bioconjug Chem 21(11):2147–2152. doi:10.1021/bc1003857
Gundlach J, Dickmanns A, Schröder-Tittmann K, Neumann P, Kaesler J, Kampf J, Herzberg C, Hammer E, Schwede F, Kaever V, Tittmann K, Stülke J, Ficner R (2015) Identification, characterization, and structure analysis of the cyclic di-AMP-binding PII-like signal transduction protein DarA. J Biol Chem 290(5):3069–3080. doi:10.1074/jbc.M114.619619
Hammerschmidt A, Chatterji B, Zeiser J, Schröder A, Genieser HG, Pich A, Kaever V, Schwede F, Wolter S, Seifert R (2012) Binding of regulatory subunits of cyclic AMP-dependent protein kinase to cyclic CMP agarose. PLoS One 7(7), e39848. doi:10.1371/journal.pone.0039848
Hayakawa Y, Nagata R, Hirata A, Hyodo M, Kawai R (2003) A facile synthesis of cyclic bis(3 ′- > 5 ′)diguanylic acid. Tetrahedron 59(34):6465–6471. doi:10.1016/S0040-4020(03)01045-7
Hsu CY, Dennis D (1982) RNA polymerase: linear competitive inhibition by bis-(3′ to 5′)-cyclic dinucleotides. Nucleic Acids Res 10(18):5637–5647
Hyodo M, Hayakawa Y (2004) An improved method for synthesizing cyclic bis(3′-5′)diguanylic acid (c-di-GMP). Bull Chem Soc Jpn 77(11):2089–2093. doi:10.1246/bcsj.77.2089
Ikehara M, Muneyama K (1966) Studies of nucleosides and nucleotides. 30. Syntheses of 8-substituted guanosine derivatives. Chem Pharm Bull (Tokyo) 14(1):46–49
Jenal U, Malone J (2006) Mechanisms of cyclic-di-GMP signaling in bacteria. Annu Rev Genet 40:385–407. doi:10.1146/annurev.genet.40.110405.090423
Jin L, Xu LG, Yang IV, Davidson EJ, Schwartz DA, Wurfel MM, Cambier JC (2011) Identification and characterization of a loss-of-function human MPYS variant. Genes Immun 12(4):263–269. doi:10.1038/gene.2010.75
Kiburu I, Shurer A, Yan L, Sintim HO (2008) A simple solid-phase synthesis of the ubiquitous bacterial signaling molecule, c-di-GMP and analogues. Mol Biosyst 4(6):518–520. doi:10.1039/b719423d
Kim S, Li L, Maliga Z, Yin Q, Wu H, Mitchison TJ (2013) Anticancer flavonoids are mouse-selective STING agonists. ACS Chem Biol 8(7):1396–1401. doi:10.1021/cb400264n
Kranzusch PJ, Lee AS, Berger JM, Doudna JA (2013) Structure of human cGAS reveals a conserved family of second-messenger enzymes in innate immunity. Cell Rep 3(5):1362–1368. doi:10.1016/j.celrep.2013.05.008
Li L, Yin Q, Kuss P, Maliga Z, Millan JL, Wu H, Mitchison TJ (2014) Hydrolysis of 2′3′-cGAMP by ENPP1 and design of nonhydrolyzable analogs. Nat Chem Biol 10(12):1043–1048. doi:10.1038/nchembio.1661
Lolicato M, Bucchi A, Arrigoni C, Zucca S, Nardini M, Schroeder I, Simmons K, Aquila M, DiFrancesco D, Bolognesi M, Schwede F, Kashin D, Fishwick CW, Johnson AP, Thiel G, Moroni A (2014) Cyclic dinucleotides bind the C-linker of HCN4 to control channel cAMP responsiveness. Nat Chem Biol 10(6):457–462. doi:10.1038/nchembio.1521
Luo Y, Zhou J, Watt SK, Lee VT, Dayie TK, Sintim HO (2012) Differential binding of 2′-biotinylated analogs of c-di-GMP with c-di-GMP riboswitches and binding proteins. Mol Biosyst 8(3):772–778. doi:10.1039/c2mb05338a
Römling U, Galperin MY, Gomelsky M (2013) Cyclic di-GMP: the first 25 years of a universal bacterial second messenger. Microbiol Mol Biol Rev 77(1):1–52. doi:10.1128/MMBR.00043-12
Ross P, Weinhouse H, Aloni Y, Michaeli D, Weinberger-Ohana P, Mayer R, Braun S, de Vroom E, van der Marel GA, van Boom JH, Benziman M (1987) Regulation of cellulose synthesis in Acetobacter xylinum by cyclic diguanylic acid. Nature 325(6101):279–281
Ross P, Mayer R, Weinhouse H, Amikam D, Huggirat Y, Benziman M, de Vroom E, Fidder A, de Paus P, Sliedregt LA et al (1990) The cyclic diguanylic acid regulatory system of cellulose synthesis in Acetobacter xylinum. Chemical synthesis and biological activity of cyclic nucleotide dimer, trimer, and phosphothioate derivatives. J Biol Chem 265(31):18933–18943
Schwede F, Maronde E, Genieser H, Jastorff B (2000) Cyclic nucleotide analogs as biochemical tools and prospective drugs. Pharmacol Ther 87(2-3):199–226
Shanahan CA, Strobel SA (2012) The bacterial second messenger c-di-GMP: probing interactions with protein and RNA binding partners using cyclic dinucleotide analogs. Org Biomol Chem 10(46):9113–9129. doi:10.1039/c2ob26724a
Shanahan CA, Gaffney BL, Jones RA, Strobel SA (2011) Differential analogue binding by two classes of c-di-GMP riboswitches. J Am Chem Soc 133(39):15578–15592. doi:10.1021/ja204650q
Shanahan CA, Gaffney BL, Jones RA, Strobel SA (2013) Identification of c-di-GMP derivatives resistant to an EAL domain phosphodiesterase. Biochemistry 52(2):365–377. doi:10.1021/bi301510v
Sharma IM, Dhanaraman T, Mathew R, Chatterji D (2012) Synthesis and characterization of a fluorescent analogue of cyclic di-GMP. Biochemistry 51(27):5443–5453. doi:10.1021/bi3003617
Smith KD, Lipchock SV, Livinston AL, Shanahan CA, Strobel SA (2010) Structural and biochemical determinants of ligand binding by the c-di-GMP riboswitch. Biochemistry 49(34):7351–7359. doi:10.1021/bi100671e
Smith KD, Shanahan CA, Moore EL, Simon AC, Strobel SA (2011) Structural basis of differential ligand recognition by two classes of bis-(3′-5′)-cyclic dimeric guanosine monophosphate-binding riboswitches. Proc Natl Acad Sci U S A 108(19):7757–7762. doi:10.1073/pnas.1018857108
Sun L, Wu J, Du F, Chen X, Chen ZJ (2013) Cyclic GMP-AMP synthase is a cytosolic DNA sensor that activates the type I interferon pathway. Science 339(6121):786–791. doi:10.1126/science.1232458
Sundriyal A, Massa C, Samoray D, Zehender F, Sharpe T, Jenal U, Schirmer T (2014) Inherent regulation of EAL domain-catalyzed hydrolysis of second messenger cyclic di-GMP. J Biol Chem 289(10):6978–6990. doi:10.1074/jbc.M113.516195
Witte G, Hartung S, Büttner K, Hopfner KP (2008) Structural biochemistry of a bacterial checkpoint protein reveals diadenylate cyclase activity regulated by DNA recombination intermediates. Mol Cell 30(2):167–178. doi:10.1016/j.molcel.2008.02.020
Wu J, Sun L, Chen X, Du F, Shi H, Chen C, Chen ZJ (2013) Cyclic GMP-AMP is an endogenous second messenger in innate immune signaling by cytosolic DNA. Science 339(6121):826–830. doi:10.1126/science.1229963
Yan H, Aguilar AL (2007) Synthesis of 3′,5′-cyclic diguanylic acid (cdiGMP) using 1-(4-chlorophenyl)-4-ethoxypiperidin-4-yl as a protecting group for 2′-hydroxy functions of ribonucleosides. Nucleosides Nucleotides Nucleic Acids 26(2):189–204. doi:10.1080/15257770601112762
Yi G, Brendel VP, Shu C, Li P, Palanathan S, Cheng Kao C (2013) Single nucleotide polymorphisms of human STING can affect innate immune response to cyclic dinucleotides. PLoS One 8(10), e77846. doi:10.1371/journal.pone.0077846
Zhang Z, Gaffney BL, Jones RA (2004) c-di-GMP displays a monovalent metal ion-dependent polymorphism. J Am Chem Soc 126(51):16700–16701. doi:10.1021/ja0449832
Zhang X, Shi H, Wu J, Zhang X, Sun L, Chen C, Chen ZJ (2013) Cyclic GMP-AMP containing mixed phosphodiester linkages is an endogenous high-affinity ligand for STING. Mol Cell 51(2):226–235. doi:10.1016/j.molcel.2013.05.022
Zhao J, Veliath E, Kim S, Gaffney BL, Jones RA (2009) Thiophosphate analogs of c-di-GMP: impact on polymorphism. Nucleosides Nucleotides Nucleic Acids 28(5):352–378. doi:10.1080/15257770903044523
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2015 Springer International Publishing Switzerland
About this chapter
Cite this chapter
Schwede, F., Genieser, HG., Rentsch, A. (2015). The Chemistry of the Noncanonical Cyclic Dinucleotide 2′3′-cGAMP and Its Analogs. In: Seifert, R. (eds) Non-canonical Cyclic Nucleotides. Handbook of Experimental Pharmacology, vol 238. Springer, Cham. https://doi.org/10.1007/164_2015_43
Download citation
DOI: https://doi.org/10.1007/164_2015_43
Published:
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-52671-3
Online ISBN: 978-3-319-52673-7
eBook Packages: Biomedical and Life SciencesBiomedical and Life Sciences (R0)