Literature DB >> 15165888

Ribosomal crystallography: a flexible nucleotide anchoring tRNA translocation, facilitates peptide-bond formation, chirality discrimination and antibiotics synergism.

Ilana Agmon1, Maya Amit, Tamar Auerbach, Anat Bashan, David Baram, Heike Bartels, Rita Berisio, Inbal Greenberg, Joerg Harms, Harly A S Hansen, Maggie Kessler, Erez Pyetan, Frank Schluenzen, Assa Sittner, Ada Yonath, Raz Zarivach.   

Abstract

The linkage between internal ribosomal symmetry and transfer RNA (tRNA) positioning confirmed positional catalysis of amino-acid polymerization. Peptide bonds are formed concurrently with tRNA-3' end rotatory motion, in conjunction with the overall messenger RNA (mRNA)/tRNA translocation. Accurate substrate alignment, mandatory for the processivity of protein biosynthesis, is governed by remote interactions. Inherent flexibility of a conserved nucleotide, anchoring the rotatory motion, facilitates chirality discrimination and antibiotics synergism. Potential tRNA interactions explain the universality of the tRNA CCA-end and P-site preference of initial tRNA. The interactions of protein L2 tail with the symmetry-related region periphery explain its conservation and its contributions to nascent chain elongation.

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Year:  2004        PMID: 15165888     DOI: 10.1016/j.febslet.2004.03.065

Source DB:  PubMed          Journal:  FEBS Lett        ISSN: 0014-5793            Impact factor:   4.124


  12 in total

1.  New photoreactive tRNA derivatives for probing the peptidyl transferase center of the ribosome.

Authors:  Anton V Manuilov; Stephen S Hixson; Robert A Zimmermann
Journal:  RNA       Date:  2007-03-22       Impact factor: 4.942

2.  The structure of ribosome-lankacidin complex reveals ribosomal sites for synergistic antibiotics.

Authors:  Tamar Auerbach; Inbal Mermershtain; Chen Davidovich; Anat Bashan; Matthew Belousoff; Itai Wekselman; Ella Zimmerman; Liqun Xiong; Dorota Klepacki; Kenji Arakawa; Haruyasu Kinashi; Alexander S Mankin; Ada Yonath
Journal:  Proc Natl Acad Sci U S A       Date:  2010-01-11       Impact factor: 11.205

3.  Number, position, and significance of the pseudouridines in the large subunit ribosomal RNA of Haloarcula marismortui and Deinococcus radiodurans.

Authors:  Mark Del Campo; Claudia Recinos; Giscard Yanez; Steven C Pomerantz; Rebecca Guymon; Pamela F Crain; James A McCloskey; James Ofengand
Journal:  RNA       Date:  2005-02       Impact factor: 4.942

4.  Changes in the level of poly(Phe) synthesis in Escherichia coli ribosomes containing mutants of L4 ribosomal protein from Thermus thermophilus can be explained by structural changes in the peptidyltransferase center: a molecular dynamics simulation analysis.

Authors:  G Papadopoulos; S Grudinin; D L Kalpaxis; T Choli-Papadopoulou
Journal:  Eur Biophys J       Date:  2006-06-14       Impact factor: 1.733

5.  Origin of life: protoribosome forms peptide bonds and links RNA and protein dominated worlds.

Authors:  Tanaya Bose; Gil Fridkin; Chen Davidovich; Miri Krupkin; Nikita Dinger; Alla H Falkovich; Yoav Peleg; Ilana Agmon; Anat Bashan; Ada Yonath
Journal:  Nucleic Acids Res       Date:  2022-02-28       Impact factor: 16.971

6.  Reconstruction of the rRNA Sequences of LUCA, with Bioinformatic Implication of the Local Similarities Shared by Them.

Authors:  Yu Men; Guoliang Lu; Yanhui Wang; Jinzhong Lin; Qiang Xie
Journal:  Biology (Basel)       Date:  2022-05-29

7.  Induced-fit tightens pleuromutilins binding to ribosomes and remote interactions enable their selectivity.

Authors:  Chen Davidovich; Anat Bashan; Tamar Auerbach-Nevo; Rachel D Yaggie; Richard R Gontarek; Ada Yonath
Journal:  Proc Natl Acad Sci U S A       Date:  2007-03-08       Impact factor: 11.205

8.  Localization of spermine binding sites in 23S rRNA by photoaffinity labeling: parsing the spermine contribution to ribosomal 50S subunit functions.

Authors:  Maria A Xaplanteri; Alexandros D Petropoulos; George P Dinos; Dimitrios L Kalpaxis
Journal:  Nucleic Acids Res       Date:  2005-05-16       Impact factor: 16.971

9.  Induced fit of the peptidyl-transferase center of the ribosome and conformational freedom of the esterified amino acids.

Authors:  Jean Lehmann
Journal:  RNA       Date:  2016-11-22       Impact factor: 4.942

10.  Mechanism of chiral proofreading during translation of the genetic code.

Authors:  Sadeem Ahmad; Satya Brata Routh; Venu Kamarthapu; Jisha Chalissery; Sowndarya Muthukumar; Tanweer Hussain; Shobha P Kruparani; Mandar V Deshmukh; Rajan Sankaranarayanan
Journal:  Elife       Date:  2013-12-03       Impact factor: 8.140

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