Structure-guided reprogramming of human cgas dinucleotide linkage specificity

Cell

Volumn 158, Issue 5, 2014, Pages 1011-1021

  Kranzusch, Philip J ^a   Lee, Amy S Y ^a   Wilson, Stephen C ^a   Solovykh, Mikhail S ^a   Vance, Russell E ^a   Berger, James M ^b   Doudna, Jennifer A ^a,c  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

^c LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DINUCLEOTIDE; MB21D1 PROTEIN, HUMAN; NUCLEOTIDYLTRANSFERASE;

ALLELE; ARTICLE; CRYSTAL STRUCTURE; INNATE IMMUNITY; LINKAGE ANALYSIS; NONHUMAN; PATHOGENESIS; PATHOGENICITY; PRIORITY JOURNAL; STIMULATION; VIBRIO CHOLERAE; AMINO ACID SEQUENCE; CHEMICAL STRUCTURE; CHEMISTRY; ENZYME ACTIVE SITE; ENZYME SPECIFICITY; ENZYMOLOGY; HUMAN; METABOLISM; MOLECULAR GENETICS; PROTEIN ENGINEERING; SEQUENCE ALIGNMENT;

BACTERIA (MICROORGANISMS); MAMMALIA; PROKARYOTA; VIBRIO CHOLERAE;

AMINO ACID SEQUENCE; CATALYTIC DOMAIN; HUMANS; IMMUNITY, INNATE; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEOTIDYLTRANSFERASES; PROTEIN ENGINEERING; SEQUENCE ALIGNMENT; SUBSTRATE SPECIFICITY; VIBRIO CHOLERAE;

EID: 84907597762     PISSN: 00928674     EISSN: 10974172     Source Type: Journal    
DOI: 10.1016/j.cell.2014.07.028     Document Type: Article

References (39)

1. A. Ablasser, M. Goldeck, T. Cavlar, T. Deimling, G. Witte, I. Röhl, K.P. Hopfner, J. Ludwig, and V. Hornung cGAS produces a 2′-5′-linked cyclic dinucleotide second messenger that activates STING Nature 498 2013 380 384
2. P.D. Adams, P.V. Afonine, G. Bunkóczi, V.B. Chen, I.W. Davis, N. Echols, J.J. Headd, L.W. Hung, G.J. Kapral, and R.W. Grosse-Kunstleve et al. PHENIX: a comprehensive Python-based system for macromolecular structure solution Acta Crystallogr. D Biol. Crystallogr. 66 2010 213 221
3. X. Cai, Y.H. Chiu, and Z.J. Chen The cGAS-cGAMP-STING pathway of cytosolic DNA sensing and signaling Mol. Cell 54 2014 289 296
4. C. Chan, R. Paul, D. Samoray, N.C. Amiot, B. Giese, U. Jenal, and T. Schirmer Structural basis of activity and allosteric control of diguanylate cyclase Proc. Natl. Acad. Sci. USA 101 2004 17084 17089
5. Z.H. Chen, and P. Schaap The prokaryote messenger c-di-GMP triggers stalk cell differentiation in Dictyostelium Nature 488 2012 680 683
6. F. Civril, T. Deimling, C.C. de Oliveira Mann, A. Ablasser, M. Moldt, G. Witte, V. Hornung, and K.P. Hopfner Structural mechanism of cytosolic DNA sensing by cGAS Nature 498 2013 332 337
7. G.E. Crooks, G. Hon, J.M. Chandonia, and S.E. Brenner WebLogo: a sequence logo generator Genome Res. 14 2004 1188 1190
8. O. Danilchanka, and J.J. Mekalanos Cyclic dinucleotides and the innate immune response Cell 154 2013 962 970
9. B.W. Davies, R.W. Bogard, T.S. Young, and J.J. Mekalanos Coordinated regulation of accessory genetic elements produces cyclic di-nucleotides for V. cholerae virulence Cell 149 2012 358 370
10. N. De, M. Pirruccello, P.V. Krasteva, N. Bae, R.V. Raghavan, and H. Sondermann Phosphorylation-independent regulation of the diguanylate cyclase WspR PLoS Biol. 6 2008 e67
11. E.J. Diner, D.L. Burdette, S.C. Wilson, K.M. Monroe, C.A. Kellenberger, M. Hyodo, Y. Hayakawa, M.C. Hammond, and R.E. Vance The innate immune DNA sensor cGAS produces a noncanonical cyclic dinucleotide that activates human STING Cell Rep. 3 2013 1355 1361
12. J. Donovan, M. Dufner, and A. Korennykh Structural basis for cytosolic double-stranded RNA surveillance by human oligoadenylate synthetase 1 Proc. Natl. Acad. Sci. USA 110 2013 1652 1657
13. P. Emsley, and K. Cowtan Coot: model-building tools for molecular graphics Acta Crystallogr. D Biol. Crystallogr. 60 2004 2126 2132
14. P. Gao, M. Ascano, Y. Wu, W. Barchet, B.L. Gaffney, T. Zillinger, A.A. Serganov, Y. Liu, R.A. Jones, and G. Hartmann et al. Cyclic [G(2′, 5′)pA(3′,5′)p] is the metazoan second messenger produced by DNA-activated cyclic GMP-AMP synthase Cell 153 2013 1094 1107
15. P. Gao, M. Ascano, T. Zillinger, W. Wang, P. Dai, A.A. Serganov, B.L. Gaffney, S. Shuman, R.A. Jones, and L. Deng et al. Structure-function analysis of STING activation by c[G(2′,5′)pA(3′,5′)p] and targeting by antiviral DMXAA Cell 154 2013 748 762
16. K.S. Inn, M.U. Gack, F. Tokunaga, M. Shi, L.Y. Wong, K. Iwai, and J.U. Jung Linear ubiquitin assembly complex negatively regulates RIG-I- and TRIM25-mediated type I interferon induction Mol. Cell 41 2011 354 365
17. L. Jin, L.G. Xu, I.V. Yang, E.J. Davidson, D.A. Schwartz, M.M. Wurfel, and J.C. Cambier Identification and characterization of a loss-of-function human MPYS variant Genes Immun. 12 2011 263 269
18. W. Kabsch Xds Acta Crystallogr. D Biol. Crystallogr. 66 2010 125 132
19. P.A. Karplus, and K. Diederichs Linking crystallographic model and data quality Science 336 2012 1030 1033
20. K. Kato, R. Ishii, E. Goto, R. Ishitani, F. Tokunaga, and O. Nureki Structural and functional analyses of DNA-sensing and immune activation by human cGAS PLoS ONE 8 2013 e76983
21. P.J. Kranzusch, and S.P. Whelan Arenavirus Z protein controls viral RNA synthesis by locking a polymerase-promoter complex Proc. Natl. Acad. Sci. USA 108 2011 19743 19748
22. P.J. Kranzusch, A.S. Lee, J.M. Berger, and J.A. Doudna Structure of human cGAS reveals a conserved family of second-messenger enzymes in innate immunity Cell Rep. 3 2013 1362 1368
23. X. Li, C. Shu, G. Yi, C.T. Chaton, C.L. Shelton, J. Diao, X. Zuo, C.C. Kao, A.B. Herr, and P. Li Cyclic GMP-AMP synthase is activated by double-stranded DNA-induced oligomerization Immunity 39 2013 1019 1031
24. X.D. Li, J. Wu, D. Gao, H. Wang, L. Sun, and Z.J. Chen Pivotal roles of cGAS-cGAMP signaling in antiviral defense and immune adjuvant effects Science 341 2013 1390 1394
25. A.A. Rahmeh, J. Li, P.J. Kranzusch, and S.P. Whelan Ribose 2′-O methylation of the vesicular stomatitis virus mRNA cap precedes and facilitates subsequent guanine-N-7 methylation by the large polymerase protein J. Virol. 83 2009 11043 11050
26. P. Ross, H. Weinhouse, Y. Aloni, D. Michaeli, P. Weinberger-Ohana, R. Mayer, S. Braun, E. de Vroom, G.A. van der Marel, J.H. van Boom, and M. Benziman Regulation of cellulose synthesis in Acetobacter xylinum by cyclic diguanylic acid Nature 325 1987 279 281
27. J.W. Schoggins, D.A. MacDuff, N. Imanaka, M.D. Gainey, B. Shrestha, J.L. Eitson, K.B. Mar, R.B. Richardson, A.V. Ratushny, and V. Litvak et al. Pan-viral specificity of IFN-induced genes reveals new roles for cGAS in innate immunity Nature 505 2014 691 695
28. D.B. Stetson, and R. Medzhitov Recognition of cytosolic DNA activates an IRF3-dependent innate immune response Immunity 24 2006 93 103
29. L. Sun, J. Wu, F. Du, X. Chen, and Z.J. Chen Cyclic GMP-AMP synthase is a cytosolic DNA sensor that activates the type I interferon pathway Science 339 2013 786 791
30. T.C. Terwilliger Reciprocal-space solvent flattening Acta Crystallogr. D Biol. Crystallogr. 55 1999 1863 1871
31. G. Witte, S. Hartung, K. Büttner, and K.P. Hopfner Structural biochemistry of a bacterial checkpoint protein reveals diadenylate cyclase activity regulated by DNA recombination intermediates Mol. Cell 30 2008 167 178
32. Y. Xiong, and T.A. Steitz Mechanism of transfer RNA maturation by CCA-adding enzyme without using an oligonucleotide template Nature 430 2004 640 645
33. X. Zhang, H. Shi, J. Wu, X. Zhang, L. Sun, C. Chen, and Z.J. Chen Cyclic GMP-AMP containing mixed phosphodiester linkages is an endogenous high-affinity ligand for STING Mol. Cell 51 2013 226 235
34. X. Zhang, J. Wu, F. Du, H. Xu, L. Sun, Z. Chen, C.A. Brautigam, X. Zhang, and Z.J. Chen The cytosolic DNA sensor cGAS forms an oligomeric complex with DNA and undergoes switch-like conformational changes in the activation loop Cell Rep. 6 2014 421 430
35. V.B. Chen, W.B. Arendall III, J.J. Headd, D.A. Keedy, R.M. Immormino, G.J. Kapral, L.W. Murray, J.S. Richardson, and D.C. Richardson MolProbity: all-atom structure validation for macromolecular crystallography Acta Crystallogr. D Biol. Crystallogr. 66 2010 12 21
36. K. Katoh, and D.M. Standley MAFFT multiple sequence alignment software version 7: improvements in performance and usability Mol. Biol. Evol. 30 2013 772 780
37. J. Pei, B.H. Kim, and N.V. Grishin PROMALS3D: a tool for multiple protein sequence and structure alignments Nucleic Acids Res. 36 2008 2295 2300
38. A.M. Waterhouse, J.B. Procter, D.M. Martin, M. Clamp, and G.J. Barton Jalview Version 2 - a multiple sequence alignment editor and analysis workbench Bioinformatics 25 2009 1189 1191
39. M.S. Weiss Global indicators of X-ray data quality J. Appl. Cryst. 34 2001 130 135