Turning into a Frataxin-Independent Organism
Frataxin was discovered because mutations in the corresponding gene cause the neurodegenerative disease Friedreich’s ataxia. The finding that frataxin protein physically associates with scaffold proteins Isu1/IscU places it squarely in the pathway of Fe-S cluster assembly. Fe-S clusters are essential cofactors for many proteins involved in cellular respiration, DNA repair, translation and other processes. Frataxin is conserved throughout evolution, being present in eukaryotes such as yeast and human and in some prokaryotes including E. coli. However, differences exist between the eukaryotic and prokaryotic forms of frataxin. The eukaryotic forms are critical for Fe-S cluster assembly whereas prokaryotic forms are more dispensable. We found that a key to this difference is a single amino acid in the scaffold protein Isu1 at position 141. Changes of the eukaryotic amino acid, Met, to prokaryotic amino acids, Ile, Leu, Cys, or Val, rendered mitochondria more frataxin-independent. No other changes were able to replicate this effect. Thus, Isu1 containing Met at position 141 may have coevolved with frataxin in eukaryotes, conferring frataxin-dependence. In contrast, the appearance of other amino acids at this position may have rendered prokaryotic cells less dependent on frataxin.
Vyšlo v časopise:
Turning into a Frataxin-Independent Organism. PLoS Genet 11(5): e32767. doi:10.1371/journal.pgen.1005135
Kategorie:
Research Article
prolekare.web.journal.doi_sk:
https://doi.org/10.1371/journal.pgen.1005135
Souhrn
Frataxin was discovered because mutations in the corresponding gene cause the neurodegenerative disease Friedreich’s ataxia. The finding that frataxin protein physically associates with scaffold proteins Isu1/IscU places it squarely in the pathway of Fe-S cluster assembly. Fe-S clusters are essential cofactors for many proteins involved in cellular respiration, DNA repair, translation and other processes. Frataxin is conserved throughout evolution, being present in eukaryotes such as yeast and human and in some prokaryotes including E. coli. However, differences exist between the eukaryotic and prokaryotic forms of frataxin. The eukaryotic forms are critical for Fe-S cluster assembly whereas prokaryotic forms are more dispensable. We found that a key to this difference is a single amino acid in the scaffold protein Isu1 at position 141. Changes of the eukaryotic amino acid, Met, to prokaryotic amino acids, Ile, Leu, Cys, or Val, rendered mitochondria more frataxin-independent. No other changes were able to replicate this effect. Thus, Isu1 containing Met at position 141 may have coevolved with frataxin in eukaryotes, conferring frataxin-dependence. In contrast, the appearance of other amino acids at this position may have rendered prokaryotic cells less dependent on frataxin.
Zdroje
1. Gibson TJ, Koonin EV, Musco G, Pastore A, Bork P (1996) Friedreich's ataxia protein: phylogenetic evidence for mitochondrial dysfunction. Trends Neurosci 19: 465–468. 8931268
2. Campuzano V, Montermini L, Molto MD, Pianese L, Cossee M, Cavalcanti F, et al. (1996) Friedreich's ataxia: autosomal recessive disease caused by an intronic GAA triplet repeat expansion. Science 271: 1423–1427. 8596916
3. Gerber J, Muhlenhoff U, Lill R (2003) An interaction between frataxin and Isu1/Nfs1 that is crucial for Fe/S cluster synthesis on Isu1. EMBO Rep 4: 906–911. 12947415
4. Schmucker S, Martelli A, Colin F, Page A, Wattenhofer-Donze M, Reutenauer L, et al. (2011) Mammalian frataxin: an essential function for cellular viability through an interaction with a preformed ISCU/NFS1/ISD11 iron-sulfur assembly complex. PLoS One 6: e16199. doi: 10.1371/journal.pone.0016199 21298097
5. Wang T, Craig EA (2008) Binding of yeast frataxin to the scaffold for Fe-S cluster biogenesis, Isu. J Biol Chem 283: 12674–12679. doi: 10.1074/jbc.M800399200 18319250
6. Lill R, Hoffmann B, Molik S, Pierik AJ, Rietzschel N, Stehling O, et al. (2012) The role of mitochondria in cellular iron-sulfur protein biogenesis and iron metabolism. Biochim Biophys Acta 1823: 1491–1508. doi: 10.1016/j.bbamcr.2012.05.009 22609301
7. Roche B, Aussel L, Ezraty B, Mandin P, Py B, Barras F (2013) Iron/sulfur proteins biogenesis in prokaryotes: formation, regulation and diversity. Biochim Biophys Acta 1827: 455–469. doi: 10.1016/j.bbabio.2012.12.010 23298813
8. Johnson DC, Dean DR, Smith AD, Johnson MK (2005) Structure, function, and formation of biological iron-sulfur clusters. Annu Rev of Biochem 74: 247–281. 15952888
9. Colin F, Martelli A, Clemancey M, Latour JM, Gambarelli S, Zeppieri L, et al. (2013) Mammalian frataxin controls sulfur production and iron entry during de novo Fe4S4 cluster assembly. J Am Chem Soc 135: 733–740. doi: 10.1021/ja308736e 23265191
10. Pastore A, Puccio H (2013) Frataxin: a protein in search for a function. J Neurochem 126 Suppl 1: 43–52. doi: 10.1111/jnc.12220 23859340
11. Shi R, Proteau A, Villarroya M, Moukadiri I, Zhang L, Trempe JF, et al. (2010) Structural basis for Fe-S cluster assembly and tRNA thiolation mediated by IscS protein-protein interactions. PLoS Biol 8: e1000354. doi: 10.1371/journal.pbio.1000354 20404999
12. Pandey A, Golla R, Yoon H, Dancis A, Pain D (2012) Persulfide formation on mitochondrial cysteine desulfurase: enzyme activation by a eukaryote-specific interacting protein and Fe-S cluster synthesis. Biochem J 448: 171–187. doi: 10.1042/BJ20120951 22928949
13. Tsai CL, Barondeau DP (2010) Human frataxin is an allosteric switch that activates the Fe-S cluster biosynthetic complex. Biochemistry 49: 9132–9139. doi: 10.1021/bi1013062 20873749
14. Iannuzzi C, Adinolfi S, Howes BD, Garcia-Serres R, Clemancey M, Latour JM, et al. (2011) The role of CyaY in iron sulfur cluster assembly on the E. coli IscU scaffold protein. PLoS One 6: e21992. doi: 10.1371/journal.pone.0021992 21799759
15. Bridwell-Rabb J, Iannuzzi C, Pastore A, Barondeau DP (2012) Effector role reversal during evolution: the case of frataxin in Fe-S cluster biosynthesis. Biochemistry 51: 2506–2514. doi: 10.1021/bi201628j 22352884
16. Pandey A, Yoon H, Lyver ER, Dancis A, Pain D (2012) Identification of a Nfs1p-bound persulfide intermediate in Fe-S cluster synthesis by intact mitochondria. Mitochondrion 12: 539–549. doi: 10.1016/j.mito.2012.07.103 22813754
17. Richards TA, van der Giezen M (2006) Evolution of the Isd11-IscS complex reveals a single alpha-proteobacterial endosymbiosis for all eukaryotes. Mol Biol Evol 23: 1341–1344. 16648156
18. Bandyopadhyay S, Chandramouli K, Johnson MK (2008) Iron-sulfur cluster biosynthesis. Biochem Soc Trans 36: 1112–1119. doi: 10.1042/BST0361112 19021507
19. Cook JD, Kondapalli KC, Rawat S, Childs WC, Murugesan Y, Dancis A, et al. (2010) Molecular details of the yeast frataxin-Isu1 interaction during mitochondrial Fe-S cluster assembly. Biochemistry 49: 8756–8765. doi: 10.1021/bi1008613 20815377
20. Pastore C, Franzese M, Sica F, Temussi P, Pastore A (2007) Understanding the binding properties of an unusual metal-binding protein—a study of bacterial frataxin. FEBS J 274: 4199–4210. 17651435
21. Kim JH, Frederick RO, Reinen NM, Troupis AT, Markley JL (2013) [2Fe-2S]-ferredoxin binds directly to cysteine desulfurase and supplies an electron for iron-sulfur cluster assembly but is displaced by the scaffold protein or bacterial frataxin. J Am Chem Soc 135: 8117–8120. doi: 10.1021/ja401950a 23682711
22. Shakamuri P, Zhang B, Johnson MK (2012) Monothiol glutaredoxins function in storing and transporting [Fe2S2] clusters assembled on IscU scaffold proteins. J Am Chem Soc 134: 15213–15216. 22963613
23. Babcock M, de Silva D, Oaks R, Davis-Kaplan S, Jiralerspong S, Montermini L, et al. (1997) Regulation of mitochondrial iron accumulation by Yfh1p, a putative homolog of frataxin. Science 276: 1709–1712. 9180083
24. Santos R, Lefevre S, Sliwa D, Seguin A, Camadro JM, Lesuisse E (2010) Friedreich ataxia: molecular mechanisms, redox considerations, and therapeutic opportunities. Antioxid Redox Signal 13: 651–690. doi: 10.1089/ars.2009.3015 20156111
25. Lesuisse E, Santos R, Matzanke BF, Knight SA, Camadro JM, Dancis A (2003) Iron use for haeme synthesis is under control of the yeast frataxin homologue (Yfh1). Hum Mol Genet 12: 879–889. 12668611
26. Miao R, Martinho M, Morales JG, Kim H, Ellis EA, Lill R, et al. (2008) EPR and Mossbauer spectroscopy of intact mitochondria isolated from Yah1p-depleted Saccharomyces cerevisiae. Biochemistry 47: 9888–9899. doi: 10.1021/bi801047q 18717590
27. Li DS, Ohshima K, Jiralerspong S, Bojanowski MW, Pandolfo M (1999) Knock-out of the cyaY gene in Escherichia coli does not affect cellular iron content and sensitivity to oxidants. FEBS Lett 456: 13–16. 10452520
28. Yoon H, Golla R, Lesuisse E, Pain J, Donald JE, Lyver ER, et al. (2012) Mutation in the Fe-S scaffold protein Isu bypasses frataxin deletion. Biochem J 441: 473–480. doi: 10.1042/BJ20111637 21936771
29. Pandey A, Gordon DM, Pain J, Stemmler TL, Dancis A, Pain D (2013) Frataxin directly stimulates mitochondrial cysteine desulfurase by exposing substrate-binding sites and a mutant Fe-S cluster scaffold protein with frataxin-bypassing ability acts similarly. J Biol Chem 288: 36773–36786. doi: 10.1074/jbc.M113.525857 24217246
30. Yoon H, Knight SA, Pandey A, Pain J, Zhang Y, Pain D, et al. (2014) Frataxin-bypassing Isu1: characterization of the bypass activity in cells and mitochondria. Biochem J 459: 71–81. doi: 10.1042/BJ20131273 24433162
31. Garland SA, Hoff K, Vickery LE, Culotta VC (1999) Saccharomyces cerevisiae ISU1 and ISU2: members of a well-conserved gene family for iron-sulfur cluster assembly. J Mol Biol 294: 897–907. 10588895
32. Andrew AJ, Song JY, Schilke B, Craig EA (2008) Posttranslational regulation of the scaffold for Fe-S cluster biogenesis, Isu. Mol Biol Cell 19: 5259–5266. doi: 10.1091/mbc.E08-06-0622 18843040
33. Manicki M, Majewska J, Ciesielski S, Schilke B, Blenska A, Kominek J, et al. (2014) Overlapping Binding Sites of the Frataxin Homologue Assembly Factor and the Heat Shock Protein 70 Transfer Factor on the Isu Iron-sulfur Cluster Scaffold Protein. J Biol Chem 289: 30268–30278. doi: 10.1074/jbc.M114.596726 25228696
34. Kim JH, Tonelli M, Markley JL (2012) Disordered form of the scaffold protein IscU is the substrate for iron-sulfur cluster assembly on cysteine desulfurase. Proc Natl Acad Sci U S A 109: 454–459. doi: 10.1073/pnas.1114372109 22203963
35. Bonomi F, Iametti S, Morleo A, Ta D, Vickery LE (2011) Facilitated transfer of IscU-[2Fe2S] clusters by chaperone-mediated ligand exchange. Biochemistry 50: 9641–9650. doi: 10.1021/bi201123z 21977977
36. Prischi F, Konarev PV, Iannuzzi C, Pastore C, Adinolfi S, Martin SR, et al. (2010) Structural bases for the interaction of frataxin with the central components of iron-sulphur cluster assembly. Nat Commun 1: 95. doi: 10.1038/ncomms1097 20981023
37. Bulteau AL, Dancis A, Gareil M, Montagne JJ, Camadro JM, Lesuisse E (2007) Oxidative stress and protease dysfunction in the yeast model of Friedreich ataxia. Free Radical Biol Med 42: 1561–1570. 17448903
38. Sherman F (2005) The importance of mutation, then and now: studies with yeast cytochrome c. Mutat Res 589: 1–16. 15652223
39. Markley JL, Kim JH, Dai Z, Bothe JR, Cai K, Frederick RO, et al. (2013) Metamorphic protein IscU alternates conformations in the course of its role as the scaffold protein for iron-sulfur cluster biosynthesis and delivery. FEBS Lett 587: 1172–1179. doi: 10.1016/j.febslet.2013.01.003 23333622
40. Shirai A, Matsuyama A, Yashiroda Y, Hashimoto A, Kawamura Y, Arai R, et al. (2008) Global analysis of gel mobility of proteins and its use in target identification. J Biol Chem 283: 10745–10752. doi: 10.1074/jbc.M709211200 18292091
41. Gordon DM, Kogan M, Knight SA, Dancis A, Pain D (2001) Distinct roles for two N-terminal cleaved domains in mitochondrial import of the yeast frataxin homolog, Yfh1p. Hum Mol Genet 10: 259–269. 11159945
42. Poor CB, Wegner SV, Li H, Dlouhy AC, Schuermann JP, Sanishvili R, et al. (2014) Molecular mechanism and structure of the Saccharomyces cerevisiae iron regulator Aft2. Proc Natl Acad Sci U S A 111: 4043–4048. doi: 10.1073/pnas.1318869111 24591629
43. Pais FS, Ruy Pde C, Oliveira G, Coimbra RS (2014) Assessing the efficiency of multiple sequence alignment programs. Algorithms Mol Biol 9: 4. doi: 10.1186/1748-7188-9-4 24602402
44. van der Giezen M, Cox S, Tovar J (2004) The iron-sulfur cluster assembly genes iscS and iscU of Entamoeba histolytica were acquired by horizontal gene transfer. BMC Evol Biol 4: 7. 15040816
45. Crooks DR, Jeong SY, Tong WH, Ghosh MC, Olivierre H, Haller RG, et al. (2012) Tissue specificity of a human mitochondrial disease: differentiation-enhanced mis-splicing of the Fe-S scaffold gene ISCU renders patient cells more sensitive to oxidative stress in ISCU myopathy. J Biol Chem 287: 40119–40130. doi: 10.1074/jbc.M112.418889 23035118
46. Li J, Kogan M, Knight SA, Pain D, Dancis A (1999) Yeast mitochondrial protein, Nfs1p, coordinately regulates iron-sulfur cluster proteins, cellular iron uptake, and iron distribution. J Biol Chem 274: 33025–33034. 10551871
47. Dai Y, Outten FW (2012) The E. coli SufS-SufE sulfur transfer system is more resistant to oxidative stress than IscS-IscU. FEBS Lett 586: 4016–4022. doi: 10.1016/j.febslet.2012.10.001 23068614
48. Puccio H, Anheim M, Tranchant C (2014) Pathophysiogical and therapeutic progress in Friedreich ataxia. Rev Neurol (Paris) 170: 355–365. doi: 10.1016/j.neurol.2014.03.008 24792433
49. Cotticelli MG, Rasmussen L, Kushner NL, McKellip S, Sosa MI, Manouvakhova A, et al. (2012) Primary and secondary drug screening assays for Friedreich ataxia. J Biomol Screen 17: 303–313. doi: 10.1177/1087057111427949 22086726
50. Diekert K, de Kroon AI, Kispal G, Lill R (2001) Isolation and subfractionation of mitochondria from the yeast Saccharomyces cerevisiae. Methods Cell Biol 65: 37–51. 11381604
51. Amutha B, Gordon DM, Gu Y, Lyver ER, Dancis A, Pain D (2008) GTP is required for iron-sulfur cluster biogenesis in mitochondria. J Biol Chem 283: 1362–1371. 18029354
52. Tong WH, Rouault TA (2006) Functions of mitochondrial ISCU and cytosolic ISCU in mammalian iron-sulfur cluster biogenesis and iron homeostasis. Cell Metab 3: 199–210. 16517407
53. Isaya G, Miklos D, Rollins RA (1994) MIP1, a new yeast gene homologous to the rat mitochondrial intermediate peptidase gene, is required for oxidative metabolism in Saccharomyces cerevisiae. Mol Cell Biol 14: 5603–5616. 8035833
Štítky
Genetika Reprodukčná medicínaČlánok vyšiel v časopise
PLOS Genetics
2015 Číslo 5
- Je „freeze-all“ pro všechny? Odborníci na fertilitu diskutovali na virtuálním summitu
- Gynekologové a odborníci na reprodukční medicínu se sejdou na prvním virtuálním summitu
Najčítanejšie v tomto čísle
- Drosophila Spaghetti and Doubletime Link the Circadian Clock and Light to Caspases, Apoptosis and Tauopathy
- Autoselection of Cytoplasmic Yeast Virus Like Elements Encoding Toxin/Antitoxin Systems Involves a Nuclear Barrier for Immunity Gene Expression
- Parp3 Negatively Regulates Immunoglobulin Class Switch Recombination
- PERK Limits Lifespan by Promoting Intestinal Stem Cell Proliferation in Response to ER Stress