Movement of the 3′‐end of tRNA through the peptidyl transferase centre and its inhibition by antibiotics
10.1016/s0014-5793(97)00261-5
Crossref journal-article
Wiley
FEBS Letters (311)
Abstract

Determining how antibiotics inhibit ribosomal activity requires a detailed understanding of the interactions and relative movement of tRNA, mRNA and the ribosome. Recent models for the formation of hybrid tRNA binding sites during the elongation cycle have provided a basis for re‐evaluating earlier experimental data and, especially, those relevant to substrate movements through the peptidyl transferase centre. With the exception of deacylated tRNA, which binds at the E‐site, ribosomal interactions of the 3′‐ends of the tRNA substrates generate only a small part of the total free energy of tRNA‐ribosome binding. Nevertheless, these relatively weak interactions determine the unidirectional movement of tRNAs through the ribosome and, moreover, they appear to be particularly susceptible to perturbation by antibiotics. Here we summarise current ideas relating particularly to the movement of the 3′‐ends of tRNA through the ribosome and consider possible inhibitory mechanisms of the peptidyl transferase antibiotics.

Bibliography

Kirillov, S., Porse, B. T., Vester, B., Woolley, P., & Garrett, R. A. (1997). Movement of the 3′‐end of tRNA through the peptidyl transferase centre and its inhibition by antibiotics. FEBS Letters, 406(3), 223–233. Portico.

Authors 5
  1. Stanislav Kirillov (first)
  2. Bo T. Porse (additional)
  3. Birte Vester (additional)
  4. Paul Woolley (additional)
  5. Roger A. Garrett (additional)
References 165 Referenced 47
  1. 10.1038/218675a0
  2. {'key': 'e_1_2_8_3_1', 'first-page': '317', 'volume': '179', 'author': 'Spirin A.S.', 'year': '1968', 'journal-title': 'Dokl Akad Nauk'} / Dokl Akad Nauk by Spirin A.S. (1968)
  3. 10.1101/SQB.1969.034.01.026
  4. 10.1038/342142a0
  5. Semenkov YuP Shapkina TG Kirillov SV. Leningrad Nucl Phys Inst Acad Sci USSR 1989; Reprint 1495.
  6. 10.1016/0014-5793(92)80380-Y
  7. 10.1016/0300-9084(92)90080-X
  8. 10.1017/S0033583500005370
  9. 10.1139/o95-095
  10. 10.1093/nar/8.1.183
  11. 10.1093/nar/8.2.403
  12. 10.1073/pnas.78.9.5310
  13. 10.1111/j.1432-1033.1982.tb06929.x
  14. 10.1016/0014-5793(83)81122-3
  15. {'key': 'e_1_2_8_16_1', 'first-page': '1130', 'volume': '19', 'author': 'Parfenov D.V.', 'year': '1985', 'journal-title': 'Mol Biol'} / Mol Biol by Parfenov D.V. (1985)
  16. 10.1021/bi00321a066
  17. 10.1016/0022-2836(67)90271-9
  18. 10.1080/07391102.1986.10506345
  19. 10.1073/pnas.61.4.1363
  20. 10.1101/SQB.1969.034.01.040
  21. 10.1073/pnas.74.5.1903
  22. 10.1093/oxfordjournals.jbchem.a130775
  23. 10.1016/0168-9525(94)90016-7
  24. 10.1016/0014-5793(85)80294-5
  25. Cundliffe E. In: Hill W Dahlberg A Garrett RA Moore PB Schlessinger D Warner JR editors. The Ribosome: Structure Function and Evolution. Washington DC: American Society for Microbiology 1990:479–490.
  26. 10.1016/0014-5793(86)80325-8
  27. 10.1126/science.270.5241.1464
  28. 10.1139/o95-111
  29. Stöffler-Meilicke M Stöffler G. In: Hill W Dahlberg A Garrett RA Moore PB Schlessinger D Warner JR editors. The Ribosome: Structure Function and Evolution. Washington DC: American Society for Microbiology 1990:123–133.
  30. 10.1111/j.1432-1033.1983.tb07258.x
  31. 10.1002/j.1460-2075.1988.tb03281.x
  32. 10.1093/nar/21.4.887
  33. 10.1016/S0006-291X(73)80067-1
  34. 10.1016/0005-2787(71)90664-2
  35. 10.1111/j.1432-1033.1978.tb12015.x
  36. 10.1016/S0021-9258(19)44671-1
  37. 10.1016/0014-5793(82)80227-5
  38. 10.1016/0014-5793(71)80032-7
  39. 10.1016/0005-2787(67)90570-9
  40. 10.1016/S0079-6603(08)60130-0
  41. 10.1007/BF00357584
  42. Bilgin N Ehrenberg M. In: Nierhaus KH Franceschi F Subramanian AR Erdmann VA Wittmann-Liebold B editors. The Translational Apparatus: Structure Function Regulation and Evolution New York: Plenum Press 1993:385–395.
  43. 10.1139/o95-093
  44. 10.1016/S0021-9258(18)91061-6
  45. 10.1016/0300-9084(87)90207-0
  46. 10.1016/S0021-9258(19)44670-X
  47. 10.1021/bi00455a011
  48. 10.1111/j.1432-1033.1986.tb09838.x
  49. 10.1016/0092-8674(89)90128-1
  50. 10.1016/0300-9084(87)90215-X
  51. 10.1006/jmbi.1994.0135
  52. Rodriguez-Fonseca C Phan H Amils R Garrett RA. manuscript in preparation 1997.
  53. 10.1006/jmbi.1995.0276
  54. 10.1002/j.1460-2075.1996.tb00425.x
  55. 10.1016/0014-5793(81)80985-4
  56. 10.1016/0014-5793(82)80584-X
  57. 10.1006/jmbi.1994.1614
  58. 10.1002/j.1460-2075.1994.tb06675.x
  59. 10.1002/j.1460-2075.1994.tb06676.x
  60. 10.1093/nar/5.10.3871
  61. 10.1016/0014-5793(80)80302-4
  62. 10.1016/0014-5793(81)80986-6
  63. 10.1016/0014-5793(82)80814-4
  64. {'key': 'e_1_2_8_65_1', 'first-page': '1090', 'volume': '18', 'author': 'Makarov E.M.', 'year': '1984', 'journal-title': 'Mol Biol'} / Mol Biol by Makarov E.M. (1984)
  65. 10.1021/bi00359a025
  66. 10.1016/S0021-9258(19)45039-4
  67. {'key': 'e_1_2_8_68_1', 'first-page': '507', 'volume': '27', 'author': 'Parfenov D.V.', 'year': '1993', 'journal-title': 'Mol Biol'} / Mol Biol by Parfenov D.V. (1993)
  68. 10.1111/j.1432-1033.1973.tb02794.x
  69. 10.1021/bi00165a004
  70. 10.1016/0014-5793(73)80455-7
  71. {'key': 'e_1_2_8_72_1', 'first-page': '877', 'volume': '33', 'author': 'Cerna J.', 'year': '1974', 'journal-title': 'Acta Biol Med Germ'} / Acta Biol Med Germ by Cerna J. (1974)
  72. 10.1073/pnas.78.4.2273
  73. 10.1038/377309a0
  74. 10.1006/jmbi.1996.0655
  75. 10.1074/jbc.271.51.32857
  76. Hardesty B Odom OW Deng H-Y. In: Hardesty B Kramer G editors. Structure Function and Genetics of Ribosomes. New York: Springer 1986:495–508. (10.1007/978-1-4612-4884-2_28)
  77. 10.1016/0300-9084(87)90226-4
  78. Hardesty B Odom OW Czworkowski J. In: Hill W Dahlberg A Garrett RA Moore PB Schlessinger D Warner JR editors. The Ribosome Structure Function and Evolution. Washington DC: American Society for Microbiology 1990:366–372.
  79. 10.1021/bi00421a021
  80. 10.1021/bi00500a004
  81. 10.1016/S0022-2836(65)80169-3
  82. {'key': 'e_1_2_8_83_1', 'first-page': '1013', 'volume': '18', 'author': 'Kirillov S.V.', 'year': '1984', 'journal-title': 'Mol Biol'} / Mol Biol by Kirillov S.V. (1984)
  83. 10.1016/0022-2836(87)90030-1
  84. 10.1016/S0022-2836(63)80030-3
  85. 10.1016/0022-2836(87)90516-X
  86. 10.1002/j.1460-2075.1989.tb08574.x
  87. 10.1073/pnas.91.10.4125
  88. Phan H Østergaard P Garrett RA. manuscript in preparation 1997.
  89. 10.1002/j.1460-2075.1993.tb05694.x
  90. 10.1038/319693a0
  91. 10.1126/science.3576200
  92. 10.1038/376441a0
  93. 10.1016/0014-5793(88)81434-0
  94. 10.1073/pnas.79.10.3111
  95. 10.1083/jcb.96.5.1471
  96. 10.1093/nar/23.13.2371
  97. 10.1016/0167-4781(90)90166-Y
  98. 10.1016/S0021-9258(18)52327-9
  99. 10.1111/j.1432-1033.1991.tb16071.x
  100. 10.1021/bi00123a023
  101. Garrett RA Rodriguez-Fonseca C. In: Zimmermann RA Dahlberg A editors. Ribosomal RNA: Structure Evolution Processing and Function in Protein Biosynthesis. Boca Raton FL: CRC Press 1995:329–357.
  102. 10.1073/pnas.86.14.5232
  103. 10.1021/bi00126a023
  104. 10.1093/nar/23.9.1512
  105. 10.1006/jmbi.1995.0659
  106. 10.1126/science.1604315
  107. 10.1016/0968-0004(82)90175-X
  108. 10.1016/0300-9084(96)88098-9
  109. Pestka S. In: Weissbach H Pestka S editors. Molecular Mechanisms of Protein Biosynthesis. New York: Academic Press 1977:467–553. (10.1016/B978-0-12-744250-1.50016-0)
  110. Vázquez D. Inhibitors of Protein Biosynthesis. New York: Springer 1979. (10.1007/978-3-642-81309-2)
  111. Gale EF Cundliffe E Reynolds PE Richmond RA Waring MJ editors. The Molecular Basis of Antibiotic Action. London: Wiley and Sons 1981.
  112. 10.1038/225152a0
  113. 10.1073/pnas.64.2.709
  114. 10.1016/S0021-9258(18)62680-8
  115. 10.1007/BF00357402
  116. 10.1111/j.1432-1033.1983.tb07674.x
  117. {'key': 'e_1_2_8_118_1', 'first-page': '528', 'volume': '22', 'author': 'Makhno V.I.', 'year': '1988', 'journal-title': 'Mol Biol'} / Mol Biol by Makhno V.I. (1988)
  118. 10.1021/bi00104a011
  119. 10.7164/antibiotics.23.288
  120. 10.1016/0045-2068(73)90028-X
  121. 10.1021/jm00252a005
  122. 10.1016/0014-5793(74)80062-1
  123. {'key': 'e_1_2_8_124_1', 'first-page': '409', 'volume': '4', 'author': 'Symons R.H.', 'year': '1978', 'journal-title': 'Bioorg Chem'} / Bioorg Chem by Symons R.H. (1978)
  124. 10.1021/jm00186a004
  125. 10.1002/j.1460-2075.1988.tb03235.x
  126. 10.1002/j.1460-2075.1994.tb06432.x
  127. 10.1128/AAC.5.3.255
  128. 10.1128/jb.162.2.551-557.1985
  129. 10.1016/S0022-2836(65)80277-7
  130. 10.1016/0014-5793(71)80666-X
  131. 10.1111/j.1432-1033.1990.tb19382.x
  132. 10.1016/S0022-2836(67)80085-8
  133. 10.1038/222356a0
  134. Goldberg IH. In: Horne R editor. Antibiotics Vol. 1: Mechanism of Action of Antibacterial Agents 1979:264–271. (10.1007/978-3-642-46403-4_15)
  135. 10.1073/pnas.88.9.3725
  136. 10.1016/0014-5793(83)80519-5
  137. 10.1016/S0079-6468(08)70344-8
  138. 10.1016/0300-9084(91)90157-V
  139. 10.1006/jmbi.1996.0455
  140. 10.1006/jmbi.1996.0454
  141. 10.1111/j.1432-1033.1970.tb00998.x
  142. 10.1093/jac/24.4.485
  143. 10.1016/S0021-9258(18)41750-4
  144. 10.1128/jb.172.8.4710-4714.1990
  145. 10.1128/jb.174.4.1333-1338.1992
  146. 10.1016/0300-9084(91)90158-W
  147. 10.1093/nar/20.18.4717
  148. 10.1006/jmbi.1993.1426
  149. {'key': 'e_1_2_8_150_1', 'first-page': '561', 'volume': '91', 'author': 'Gu Z.', 'year': '1994', 'journal-title': 'Proc Natl Acad Sci USA'} / Proc Natl Acad Sci USA by Gu Z. (1994)
  150. 10.1111/j.1432-1033.1977.tb11422.x
  151. 10.1016/0300-9084(87)90218-5
  152. 10.1016/S0021-9258(19)44669-3
  153. 10.1021/bi00787a014
  154. 10.1128/AAC.37.9.2027
  155. 10.1111/j.1432-1033.1973.tb03020.x
  156. 10.1101/SQB.1969.034.01.023
  157. 10.1016/S0022-2836(83)80036-9
  158. {'key': 'e_1_2_8_159_1', 'first-page': '516', 'volume': '25', 'author': 'Parfenov D.V.', 'year': '1991', 'journal-title': 'Mol Biol'} / Mol Biol by Parfenov D.V. (1991)
  159. 10.1111/j.1432-1033.1986.tb09392.x
  160. 10.1111/j.1432-1033.1987.tb10991.x
  161. 10.1016/0003-9861(92)90078-B
  162. 10.1021/bi00140a023
  163. {'key': 'e_1_2_8_164_1', 'first-page': '615', 'volume': '36', 'author': 'Kalpaxis D.L.', 'year': '1989', 'journal-title': 'Mol Pharmacol'} / Mol Pharmacol by Kalpaxis D.L. (1989)
  164. Ballesta JPG Lázaro E. In: Hill W Dahlberg A Garrett RA Moore PB Schlessinger D Warner JR editors. The Ribosome: Structure Function and Evolution. Washington DC: American Society for Microbiology 1990:502–510.
  165. 10.1021/jm00352a004
Dates
Type When
Created 23 years, 1 month ago (July 25, 2002, 1:54 p.m.)
Deposited 1 year, 11 months ago (Sept. 16, 2023, 4:55 a.m.)
Indexed 1 year ago (Aug. 6, 2024, 7:34 p.m.)
Issued 28 years, 4 months ago (April 14, 1997)
Published 28 years, 4 months ago (April 14, 1997)
Published Online 27 years, 5 months ago (March 10, 1998)
Published Print 28 years, 4 months ago (April 14, 1997)
Funders 0

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@article{Kirillov_1997, title={Movement of the 3′‐end of tRNA through the peptidyl transferase centre and its inhibition by antibiotics}, volume={406}, ISSN={1873-3468}, url={http://dx.doi.org/10.1016/s0014-5793(97)00261-5}, DOI={10.1016/s0014-5793(97)00261-5}, number={3}, journal={FEBS Letters}, publisher={Wiley}, author={Kirillov, Stanislav and Porse, Bo T. and Vester, Birte and Woolley, Paul and Garrett, Roger A.}, year={1997}, month=apr, pages={223–233} }