A Pyranose-2-Phosphate Motif Is Responsible for Both Antibiotic Import and Quorum-Sensing Regulation in
We succeeded in understanding how the periplasmic protein AccA from the pathogen A. tumefaciens can bind both the plant compound agrocinopine and the antibiotic agrocin 84. Whereas agrocinopine acts as a nutrient and regulatory signal in A. tumefaciens, agrocin 84 is lethal once degraded by the enzyme AccF into a toxic moiety. We identified the pyranose-2-phosphate-like moiety shared by these two ligands as the key recognition template for AccA. We hypothesized that agrocin 84 would kill all agrobacteria possessing AccA and AccF and that AccA would be a gateway allowing the importation of any compound possessing a pyranose-2-phosphate motif. We experimentally confirmed this, using synthetic derivative compounds of agrocinopine. Furthermore, using affinity and in vivo assays, we showed that arabinose-2-phosphate, resulting from the cleavage of agrocinopine by AccF, is the effector of the transcriptional repressor AccR, that controls quorum-sensing and virulence plasmid propagation. Therefore, we have identified an original and specific key molecular motif (pyranose-2-phosphate) allowing a selective passage of active compounds into the pathogen cells and acting as signals once the active compounds are cleaved into this key motif. Our work opens up new opportunities to rationally design novel antibiotics.
Vyšlo v časopise:
A Pyranose-2-Phosphate Motif Is Responsible for Both Antibiotic Import and Quorum-Sensing Regulation in. PLoS Pathog 11(8): e32767. doi:10.1371/journal.ppat.1005071
Kategorie:
Research Article
prolekare.web.journal.doi_sk:
https://doi.org/10.1371/journal.ppat.1005071
Souhrn
We succeeded in understanding how the periplasmic protein AccA from the pathogen A. tumefaciens can bind both the plant compound agrocinopine and the antibiotic agrocin 84. Whereas agrocinopine acts as a nutrient and regulatory signal in A. tumefaciens, agrocin 84 is lethal once degraded by the enzyme AccF into a toxic moiety. We identified the pyranose-2-phosphate-like moiety shared by these two ligands as the key recognition template for AccA. We hypothesized that agrocin 84 would kill all agrobacteria possessing AccA and AccF and that AccA would be a gateway allowing the importation of any compound possessing a pyranose-2-phosphate motif. We experimentally confirmed this, using synthetic derivative compounds of agrocinopine. Furthermore, using affinity and in vivo assays, we showed that arabinose-2-phosphate, resulting from the cleavage of agrocinopine by AccF, is the effector of the transcriptional repressor AccR, that controls quorum-sensing and virulence plasmid propagation. Therefore, we have identified an original and specific key molecular motif (pyranose-2-phosphate) allowing a selective passage of active compounds into the pathogen cells and acting as signals once the active compounds are cleaved into this key motif. Our work opens up new opportunities to rationally design novel antibiotics.
Zdroje
1. Berntsson RP, Smits SHJ, Schmitt L, Slotboom D-J, Poolman B. A structural classification of substrate-binding proteins. FEBS Lett. 2010; 584: 2606–17. doi: 10.1016/j.febslet.2010.04.043 20412802
2. Roberts WP, Tate ME, Kerr A. Agrocin 84 is a 6-N-phosphoramidate of an adenine nucleotide analogue. Nature. 1977; 265: 379–81. 834287
3. Thompson RJ, Hamilton RH. H, Pootjes C. FF. Purification and characterization of agrocin 84. Antimicrob Agents Chemother. 1979; 16: 293–6. 507786
4. Gelvin SB. Agrobacterium-mediated plant transformation: the biology behind the “gene-jockeying” tool. Microbiol Mol Biol Rev. 2003; 67: 16–37. 12626681
5. Kim J-G, Park BK, Kim S-U, Choi D, Nahm BH, Moon JS, et al. Bases of biocontrol: sequence predicts synthesis and mode of action of agrocin 84, the Trojan horse antibiotic that controls crown gall. Proc Natl Acad Sci U S A. 2006; 103: 8846–51. 16731618
6. Reader JS, Ordoukhanian PT, Kim J, Hwang I, Farrand S. Major Biocontrol of Plant Tumors. Science (80-). 2005; 309: 1533.
7. Chopra S, Palencia A, Virus C, Tripathy A, Temple BR, Velazquez-Campoy A, et al. Plant tumour biocontrol agent employs a tRNA-dependent mechanism to inhibit leucyl-tRNA synthetase. Nat Commun. 2013; 4: 1417. doi: 10.1038/ncomms2421 23361008
8. Ellis JG, Murphy PJ. Four new opines from crown gall tumours—Their detection and properties. Mol Gen Genet. 1981; 181: 36–43.
9. Veselov D, Langhans M, Hartung W, Aloni R, Feussner I, Gotz C, et al. Development of Agrobacterium tumefaciens C58-induced plant tumors and impact on host shoots are controlled by a cascade of jasmonic acid, auxin, cytokinin, ethylene and abscisic acid. Planta. 2003; 216: 512–522. 12520344
10. Chilton MD, Saiki RK, Yadav N, Gordon MP, Quetier F. T-DNA from Agrobacterium Ti plasmid is in the nuclear DNA fraction of crown gall tumor cells. Proc Natl Acad Sci U S A. 1980; 77: 4060–4. 16592850
11. Hernalsteens JP, Thia-Toong L, Schell J, Van Montagu M. An Agrobacterium-transformed cell culture from the monocot Asparagus officinalis. EMBO J. 1984; 3: 3039–41. 16453585
12. Beck von Bodman S, Hayman GT, Farrand SK. Opine catabolism and conjugal transfer of the nopaline Ti plasmid pTiC58 are coordinately regulated by a single repressor. Proc Natl Acad Sci U S A. 1992; 89: 643–7. 1731335
13. Ellis JG, Kerr A, Petit A, Tempe J. Conjugal transfer of nopaline and agropine Ti-plasmids ? The role of agrocinopines. Mol Gen Genet. 1982; 186: 269–274.
14. Kim HS, Yi H, Myung J, Piper KR, Farrand SK. Opine-based Agrobacterium competitiveness: dual expression control of the agrocinopine catabolism (acc) operon by agrocinopines and phosphate levels. J Bacteriol. 2008; 190: 3700–11. doi: 10.1128/JB.00067-08 18344359
15. Kim H, Farrand SK. Characterization of the acc operon from the nopaline-type Ti plasmid pTiC58, which encodes utilization of agrocinopines A and B and susceptibility to agrocin 84. J Bacteriol. 1997; 179: 7559–72. 9393724
16. Messens E, Lenaerts A, Hedges RW, Montagu M V. Agrocinopine A, a phophorylated opine is secreted from crown gall cells. EMBO J. 1985; 4: 571–577. 15926217
17. Ryders MH, Tate ME, Jones P, Tateq ME, Jonesn P. Agrocinopine A, a tumor inducing Plasmid-coded enzyme product, is a Phosphodiester of Sucrose and L-arabinose. J Biol Chem. 1984; 259: 9704–9710. 6746666
18. Richaud C, Mengin-Lecreulx D, Pochet S, Johnson E, Cohen G, Marliere P. Directed evolution of biosynthetic pathways. Recruitment of cysteine thioethers for constructing the cell wall of Escherichia coli. J Biol Chem. 1993; 268: 26827–26835. 8262915
19. Tate ME, Murphy PJ, Roberts WP, Keer A. Adenine N6-substituent of agrocin 84 determines its bacteriocin-like specificity. Nature. 1979; 280: 697–9. 471050
20. Kerr A, Tate ME. Agrocin 84. Mal Otis C. Encyclopedia of Plant Pathology. 2001. pp. 20–21.
21. Tate M. E, Kerr A. Encyclopedia of Agrochemicals. Plimmer JR, Gammon DW, Ragsdale NA, editors. 2003.
22. Krissinel E, Henrick K. Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions. Acta Crystallogr D Biol Crystallogr. 2004/12/02 ed. 2004; 60: 2256–68. 15572779
23. Lebrette H, Borezée-Durant E, Martin L, Richaud P, Boeri Erba E, Cavazza C. Novel insights into nickel import in Staphylococcus aureus: the positive role of free histidine and structural characterization of a new thiazolidine-type nickel chelator. Metallomics. 2015;
24. Levdikov VM, Blagova E V, Brannigan J a, Wright L, Vagin A a, Wilkinson AJ. The structure of the oligopeptide-binding protein, AppA, from Bacillus subtilis in complex with a nonapeptide. J Mol Biol. 2005; 345: 879–92. 15588833
25. Tame JR, Sleigh SH, Wilkinson AJ, Ladbury JE. The role of water in sequence-independent ligand binding by an oligopeptide transporter protein. Nat Struct Biol. 1996; 3: 998–1001. 8946852
26. Klepsch MM, Kovermann M, Löw C, Balbach J, Permentier HP, Fusetti F, et al. Escherichia coli peptide binding protein OppA has a preference for positively charged peptides. J Mol Biol. 2011; 414: 75–85. doi: 10.1016/j.jmb.2011.09.043 21983341
27. Sleigh SH, Seavers PR, Wilkinson AJ, Ladbury JE, Tame JR. Crystallographic and calorimetric analysis of peptide binding to OppA protein. J Mol Biol. 1999; 291: 393–415. 10438628
28. Lebrette H, Iannello M, Fontecilla-Camps JC, Cavazza C. The binding mode of Ni-(L-His)2 in NikA revealed by X-ray crystallography. J Inorg Biochem. 2013; 121: 16–8. doi: 10.1016/j.jinorgbio.2012.12.010 23314594
29. Cuneo MJ, Beese LS, Hellinga HW. Structural analysis of semi-specific oligosaccharide recognition by a cellulose-binding protein of Thermotoga maritima reveals adaptations for functional diversification of the oligopeptide periplasmic binding protein fold. J Biol Chem. 2009; 284: 33217–23. doi: 10.1074/jbc.M109.041624 19801540
30. Dunten P, Mowbray SL. Crystal structure of the dipeptide binding protein from Escherichia coli involved in active transport and chemotaxis. Protein Sci. 1995; 4: 2327–34. 8563629
31. Hayman GT, Beck von Bodman S, Kim H, Jiang P, Farrand SK. Genetic analysis of the agrocinopine catabolic region of Agrobacterium tumefaciens Ti plasmid pTiC58, which encodes genes required for opine and agrocin 84 transport. J Bacteriol. 1993; 175: 5575–84. 8366042
32. Murphy PJ, Tate ME, Kerr A. Substituents at N6 and C-5′ Control Selective Uptake and Toxicity of the Adenine-Nucleotide Bacteriocin, Agrocin 84, in Agrobacteria. Eur J Biochem. 2005; 115: 539–543.
33. Tagliabracci VS, Heiss C, Karthik C, Contreras CJ, Glushka J, Ishihara M, et al. Phosphate incorporation during glycogen synthesis and Lafora disease. Cell Metab. 2011; 13: 274–82. doi: 10.1016/j.cmet.2011.01.017 21356517
34. Lindberg M, Norberg T. Synthesis of Sucrose 4′-(L-Arabinose-2-YL Phosphate) (Agrocinopihe A) Using an Arabinose 2-H-Phosphonate Intermediate. J Carbohydr Chem. 1988; 7: 749–755.
35. Rölle T, Hoffmann RW. Model Studies towards the Synthesis of the Right-Hand Part of Pederin. Helv Chim Acta. 2004; 87: 1214–1227.
36. Bannwarth W, Trzeciak A. A Simple and Effective Chemical Phosphorylation Procedure for Biomolecules. Helv Chim Acta. 1987; 70: 175–186.
37. Buijsman RC, Basten JEM, Dreef-Tromp CM, Marel GA, Boeckel CAA, Boom JH. Synthesis of heparin-like antithrombotics having perphosphorylated thrombin binding domains. Bioorg Med Chem. 1999; 7: 1881–1890. 10530936
38. Clode DM, Laurie WA, McHale D, Sheridan JB. Synthesis of 6,1′,3′-, 2,6,1′-, 1′,3′,6′-, and 2,1′,6′-tri-O-benzoylsucrose. Carbohydr Res. 1985; 139: 161–183.
39. Messens E, Lenaerts A, Montagu M Van, De Bruyn A, Jans AWH, Binst G Van. P NMR Spectroscopy of Agrocinopine. J Carbohydr Chem. 1986; 5: 683–699.
40. Guchhait G, Misra AK. Efficient glycosylation of unprotected sugars using sulfamic acid: A mild eco-friendly catalyst. Catal Commun. 2011; 14: 52–57.
41. Lecourt T, Herault A, Pearce AJ, Sollogoub M, Sinaÿ P. Triisobutylaluminium and diisobutylaluminium hydride as molecular scalpels: the regioselective stripping of perbenzylated sugars and cyclodextrins. Chemistry. 2004; 10: 2960–71. 15214078
42. Kabsch W. XDS. Acta Crystallogr D Biol Crystallogr. 2010; 66: 125–32. doi: 10.1107/S0907444909047337 20124692
43. Sheldrick GM. A short history of SHELX. Acta Crystallogr A. 2008; 64: 112–22. 18156677
44. McCoy AJ, Grosse-Kunstleve RW, Adams PD, Winn MD, Storoni LC, Read RJ. Phaser crystallographic software. J Appl Crystallogr. 2007/08/01 ed. 2007; 40: 658–674. 19461840
45. Blanc E, Roversi P, Vonrhein C, Flensburg C, Lea SM, Bricogne G. Refinement of severely incomplete structures with maximum likelihood in BUSTER-TNT. Acta Crystallogr D Biol Crystallogr. 2004; 60: 2210–21. 15572774
46. Emsley P, Cowtan K. Coot: model-building tools for molecular graphics. Acta Crystallogr D Biol Crystallogr. 2004/12/02 ed. 2004; 60: 2126–2132. 15572765
47. Schüttelkopf AW, Aalten DMF, van Aalten DMF. PRODRG: a tool for high-throughput crystallography of protein-ligand complexes. Acta Crystallogr D Biol Crystallogr. 2004; 60: 1355–63. 15272157
48. Wiseman T, Williston S, Brandts JF, Lin LN. Rapid measurement of binding constants and heats of binding using a new titration calorimeter. Anal Biochem. 1989/05/15 ed. 1989; 179: 131–137. 2757186
49. Haudecoeur E, Planamente S, Cirou a, Tannières M, Shelp BJ, Moréra S, et al. Proline antagonizes GABA-induced quenching of quorum sensing in Agrobacterium tumefaciens. Proc Natl Acad Sci U S A. 2009; 106: 14587–92. doi: 10.1073/pnas.0808005106 19706545
50. Maurhofer M, Reimmann C, Schmidli-Sacherer P, Heeb S, Haas D, Défago G. Salicylic Acid Biosynthetic Genes Expressed in Pseudomonas fluorescens Strain P3 Improve the Induction of Systemic Resistance in Tobacco Against Tobacco Necrosis Virus. Phytopathology. 1998; 88: 678–684. doi: 10.1094/PHYTO.1998.88.7.678 18944940
51. Lang J, Planamente S, Mondy S, Dessaux Y, Moréra S, Faure D. Concerted transfer of the virulence Ti plasmid and companion At plasmid in the Agrobacterium tumefaciens-induced plant tumour. Mol Microbiol. 2013; 90: 1178–89. doi: 10.1111/mmi.12423 24118167
52. Cha C, Gao P, Chen YC, Shaw PD, Farrand SK. Production of acyl-homoserine lactone quorum-sensing signals by gram-negative plant-associated bacteria. Mol Plant Microbe Interact. 1998; 11: 1119–29. 9805399
Štítky
Hygiena a epidemiológia Infekčné lekárstvo LaboratóriumČlánok vyšiel v časopise
PLOS Pathogens
2015 Číslo 8
- Očkování proti virové hemoragické horečce Ebola experimentální vakcínou rVSVDG-ZEBOV-GP
- Parazitičtí červi v terapii Crohnovy choroby a dalších zánětlivých autoimunitních onemocnění
- Koronavirus hýbe světem: Víte jak se chránit a jak postupovat v případě podezření?
Najčítanejšie v tomto čísle
- Human Non-neutralizing HIV-1 Envelope Monoclonal Antibodies Limit the Number of Founder Viruses during SHIV Mucosal Infection in Rhesus Macaques
- Type VI Secretion System Toxins Horizontally Shared between Marine Bacteria
- Are Human Intestinal Eukaryotes Beneficial or Commensals?
- Illuminating Targets of Bacterial Secretion