Translation initiation complex formation in the crenarchaeon Sulfolobus solfataricus

RNA

Volumn 15, Issue 12, 2009, Pages 2288-2298

  Hasenöhrl, David ^a   Fabbretti, Attilio ^b   Londei, Paola ^c   Gualerzi, Claudio O ^b   Bläsi, Udo ^a  

^a UNIVERSITY OF VIENNA   (Austria)

^b UNIVERSITY OF CAMERINO   (Italy)

^c SAPIENZA UNIVERSITY OF ROME   (Italy)

Author keywords

a eIf2; aIf1; Archaea; Sulfolobus solfataricus; Translation initiation

Indexed keywords

ALLOGRAFT INFLAMMATORY FACTOR 1; GUANINE NUCLEOTIDE BINDING PROTEIN; INITIATION FACTOR 2; TRANSFER RNA;

ARTICLE; COMPLEX FORMATION; EUKARYOTE; FLUORESCENCE RESONANCE ENERGY TRANSFER; NONHUMAN; ORTHOLOGY; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN DETERMINATION; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN SYNTHESIS; RIBOSOME; SEQUENCE ANALYSIS; SULFOLOBUS SOLFATARICUS; TRANSLATION INITIATION;

ARCHAEAL PROTEINS; BASE SEQUENCE; CODON, INITIATOR; DNA-BINDING PROTEINS; NUCLEIC ACID CONFORMATION; PEPTIDE INITIATION FACTORS; PROTEIN BINDING; PROTEIN BIOSYNTHESIS; RIBOSOME SUBUNITS, SMALL, ARCHAEAL; RNA, ARCHAEAL; SULFOLOBUS SOLFATARICUS;

ARCHAEA; BACTERIA (MICROORGANISMS); CRENARCHAEOTA; EUKARYOTA; SULFOLOBUS SOLFATARICUS;

EID: 73249149527     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.1662609     Document Type: Article

References (51)

1. Acker MG, Lorsch JR. 2008. Mechanism of ribosomal subunit joining during eukaryotic translation initiation. Biochem Soc Trans 36: 653-657.
2. Benelli D, Maone E, Londei P. 2003. Two different mechanisms for ribosome/mRNA interaction in archaeal translation initiation. Mol Microbiol 50: 635-643.
3. Boelens R, Gualerzi CO. 2002. Structure and function of bacterial initiation factors. Curr Protein Pept Sci 3: 107-119.
4. Carter AP, Clemons WMJ, Brodersen DE, Morgan-Warren RJ, Hartsch T, Wimberly BT, Ramakrishnan V. 2001. Crystal structure of an initiation factor bound to the 30S ribosomal subunit. Science 291: 498-501.
5. Cheung YN, Maag D, Mitchell SF, Fekete CA, Algire MA, Takacs JE, Shirokikh N, Pestova T, Lorsch JR, Hinnebusch AG. 2007. Dissociation of eIF1 from the 40S ribosomal subunit is a key step in start codon selection in vivo. Genes & Dev 21: 1217-1230.
6. Dallas A, Noller HF. 2001. Interaction of translation initiation factor 3 with the 30S ribosomal subunit. Mol Cell 8: 855-864.
7. Fabbretti A, Milon P, Giuliodori A, Gualerzi CO, Pon CL. 2007. Realtime dynamics of ribosome-ligand interaction by time-resolved chemical probing methods. Methods Enzymol 430: 45-58.
8. Fraser CS, Berry KE, Hershey JW, Doudna JA. 2007. eIF3j is located in the decoding center of the human 40S ribosomal subunit. Mol Cell 26: 811-819.
9. Grill S, Gualerzi CO, Londei P, Bläsi U. 2000. Selective stimulation of translation of leaderless mRNA by initiation factor 2: Evolutionary implications for translation. EMBO J 19: 4101-4110.
10. Gualerzi CO, Pon CL. 1990. Initiation of mRNA translation in Prokaryotes. Biochemistry 29: 5881-5889.
11. Gualerzi CO, Brandi L, Caserta E, Garofalo C, Lammi M, La Teana A, Petrelli D, Spurio R, Tomsic J, Pon CL. 2001. Initiation factors in the early events of mRNA translation in bacteria. Cold Spring Harb Symp Quant Biol 66: 363-376.
12. Hartz D, Binkley J, Hollingsworth T, Gold L. 1990. Domains of initiator tRNA and initiation codon crucial for initiator tRNA selection by Escherichia coli IF3. Genes & Dev 4: 1790-1800.
13. Hasenöhrl D, Benelli D, Barbazza A, Londei P, Bläsi U. 2006. Sulfolobus solfataricus translation initiation factor 1 stimulates translation initiation complex formation. RNA 12: 674-682.
14. Hasenöhrl D, Lombo T, Kaberdin V, Londei P, Bläsi U. 2008. Translation initiation factor a/eIF2(-g) counteracts 59 to 39 mRNA decay in the archaeon Sulfolobus solfataricus. Proc Natl Acad Sci 105: 2146-2150.
15. Kaminishi T, Wilson DN, Takemoto C, Harms JM, Kawazoe M, Schluenzen F, Hanawa-Suetsugu K, Shirouzu M, Fucini P, Yokoyama S. 2007. A snapshot of the 30S ribosomal subunit capturing mRNA via the Shine-Dalgarno interaction. Structure 15: 289-297.
16. Kapp LD, Lorsch JR. 2004. The molecular mechanics of eukaryotic translation. Annu Rev Biochem 73: 657-704.
17. La Teana A, Gualerzi CO, Brimacombe R. 1995. From stand-by to decoding site. Adjustment of the mRNA on the 30S ribosomal subunit under the influence of the initiation factors. RNA 1: 772-782.
18. Laursen BS, Sorensen HP, Mortensen KK, Sperling-Petersen HU. 2005. Initiation of protein synthesis in bacteria. Microbiol Mol Biol Rev 69: 101-123.
19. Lomakin IB, Kolupaeva VG, Marintchev A, Wagner G, Pestova TV. 2003. Position of eukaryotic initiation factor eIF1 on the 40S ribosomal subunit determined by directed hydroxyl radical probing. Genes & Dev 17: 2786-2797.
20. Londei P, Altamura S, Cammarano P, Petrucci L. 1986. Differential features of ribosomes and of poly(U)-programmed cell-free systems derived from sulphur-dependent archaebacterial species. Eur J Biochem 157: 455-462.
21. Maag D, Fekete CA, Gryczynski Z, Lorsch JR. 2005. A conformational change in the eukaryotic translation preinitiation complex and release of eIF1 signal recognition of the start codon. Mol Cell 17: 265-275.
22. Maag D, Algire MA, Lorsch JR. 2006. Communication between eukaryotic translation initiation factors 5 and 1A within the ribosomal pre-initiation complex plays a role in start site selection. J Mol Biol 356: 724-737.
23. Maone E, Di Stefano M, Berardi A, Benelli D, Marzi S, La Teana A, Londei P. 2007. Functional analysis of the translation factor aIF2/5B in the thermophilic archaeon Sulfolobus solfataricus. Mol Microbiol 65: 700-713.
24. Marzi S, Knight W, Brandi L, Caserta E, Soboleva N, Hill WE, Gualerzi CO, Lodmell JS. 2003. Ribosomal localization of translation initiation factor IF2. RNA 9: 958-969.
25. Mayer C, Köhrer C, Kenny E, Prusko C, RajBhandary UL. 2003. Anticodon sequence mutants of Escherichia coli initiator tRNA: Effects of overproduction of aminoacyl-tRNA synthetases, methionyl-tRNA formyltransferase, and initiation factor 2 on activity in initiation. Biochemistry 42: 4787-4799.
26. McCutcheon JP, Agrawal RK, Philips SM, Grassucci RA, Gerchman SE, Clemons WM Jr, Ramakrishnan V, Frank J. 1999. Location of translational initiation factor IF3 on the small ribosomal subunit. Proc Natl Acad Sci 96: 4301-4306.
27. Milon P, Konevega AL, Peske F, Fabbretti A, Gualerzi CO, Rodnina MV. 2007. Transient kinetics, fluorescence, and FRET in studies of initiation of translation in bacteria. Methods Enzymol 430: 1-30.
28. Milon P, Konevega AL, Gualerzi CO, Rodnina MV. 2008. Kinetic checkpoint at a late step in translation initiation.Mol Cell 30: 712-720.
29. Moazed D, Samaha RR, Gualerzi CO, Noller HF. 1995. Specific protection of 16 S rRNA by translational initiation factors. J Mol Biol 248: 207-210.
30. Moll I, Huber M, Grill S, Sairafi P, Mueller F, Brimacombe R, Londei P, Bläsi U. 2001. Evidence against an Interaction between the mRNA downstream box and 16S rRNA in translation initiation. J Bacteriol 183: 3499-3505.
31. Moll I, Hirokawa G, Kiel MC, Kaji A, Bläsi U. 2004. Translation initiation with 70S ribosomes: An alternative pathway for leaderless mRNAs. Nucleic Acids Res 32: 3354-3363.
32. Nikonov O, Stolboushkina E, Nikulin A, Hasenohrl D, Bläsi U, Manstein DJ, Fedorov R, Garber M, Nikonov S. 2007. New insights into the interactions of the translation initiation factor 2 from Archaea with guanine nucleotides and initiator tRNA. J Mol Biol 373: 328-336.
33. Passmore LA, Schmeing TM, Maag D, Applefield DJ, Acker MG, Algire MA, Lorsch JR, Ramakrishnan V. 2007. The eukaryotic translation initiation factors eIF1 and eIF1A induce an open conformation of the 40S ribosome. Mol Cell 26: 41-50.
34. Pedulla N, Palermo R, Hasenöhrl D, Bläsi U, Cammarano P, Londei P. 2005. The archaeal eIF2 homologue: Functional properties of an ancient translation initiation factor. Nucleic Acids Res 33: 1804-1812.
35. Pestova TV, Lomakin IB, Lee JH, Choi SK, Dever TE, Hellen CU. 2000. The joining of ribosomal subunits in eukaryotes requires eIF5B. Nature 403: 332-335.
36. Petrelli D, LaTeana A, Garofalo C, Spurio R, Pon CL, Gualerzi CO. 2001. Translation initiation factor IF3: Two domains, five functions, one mechanism? EMBO J 20: 4560-4569.
37. Richter D, Lipmann F. 1970. Formation of a ternary complex between formylatable yeast Met-tRNA, GTP and binding factor T of yeast and of E. coli. Nature 227: 1212-1214.
38. She Q, Singh RK, Confalonieri F, Zivanovic Y, Allard G, Awayez MJ, Chan-Weiher CC, Clausen IG, Curtis BA, De Moors A, et al. 2001. The complete genome of the crenarchaeon Sulfolobus solfataricus P2. Proc Natl Acad Sci 98: 7835-7840.
39. Shin BS, Maag D, Roll-Mecak A, Arefin MS, Burley SK, Lorsch JR, Dever TE. 2002. Uncoupling of initiation factor eIF5B/IF2 GTPase and translational activities by mutations that lower ribosome affinity. Cell 111: 1015-1025.
40. Singh CR, He H, Ii M, Yamamoto Y, Asano K. 2004. Efficient incorporation of eukaryotic initiation factor 1 into the multifactor complex is critical for formation of functional ribosomal preinitiation complexes in vivo. J Biol Chem 279: 31910-31920.
41. Smith CWJ. 1998. RNA:protein interactions: A practical approach. Oxford University Press, Oxford, New York.
42. Sonenberg N, Hinnebusch AG. 2009. Regulation of translation initiation in eukaryotes: Mechanisms and biological targets. Cell 136: 731-745.
43. Spahn CM, Beckmann R, Eswar N, Penczek PA, Sali A, Blobel G, Frank J. 2001. Structure of the 80S ribosome from Saccharomyces cerevisiae-tRNA- ribosome and subunit-subunit interactions. Cell 107: 373-386.
44. Subramanian AR, Davis BD. 1970. Activity of initiation factor F3 in dissociating Escherichia coli ribosomes. Nature 228: 1273-1275.
45. Tolstrup N, Sensen CW, Garrett RA, Clausen IG. 2000. Two different and highly organized mechanisms of translation initiation in the archaeon Sulfolobus solfataricus. Extremophiles 4: 175-179.
46. Unbehaun A, Marintchev A, Lomakin IB, Didenko T, Wagner G, Hellen CU, Pestova TV. 2007. Position of eukaryotic initiation factor eIF5B on the 80S ribosome mapped by directed hydroxyl radical probing. EMBO J 26: 3109-3123.
47. Yatime L, Schmitt E, Blanquet S, Mechulam Y. 2004. Functional molecular mapping of archaeal translation initiation factor 2. J Biol Chem 279: 15984-15993.
48. Yatime L, Mechulam Y, Blanquet S, Schmitt E. 2006. Structural switch of the g subunit in an archaeal aIF2 a g heterodimer. Structure 14: 119-128.
49. Yatime L, Mechulam Y, Blanquet S, Schmitt E. 2007. Structure of an archaeal heterotrimeric initiation factor 2 reveals a nucleotide state between the GTP and the GDP states. Proc Natl Acad Sci 104: 18445-18450.
50. Yusupov MM, Yusupova GZ, Baucom A, Lieberman K, Earnest TN, Cate JH, Noller HF. 2001. Crystal structure of the ribosome at 5.5 Å resolution. Science 292: 883-896.
51. Yusupova G, Jenner L, Rees B, Moras D, Yusupov M. 2006. Structural basis for messenger RNA movement on the ribosome. Nature 444: 391-394.