Literature DB >> 19915655

The linkage between ribosomal crystallography, metal ions, heteropolytungstates and functional flexibility.

Anat Bashan1, Ada Yonath.   

Abstract

Crystallography of ribosomes, the universal cell nucleoprotein assemblies facilitating the translation of the genetic-code into proteins, met with severe problems owing to their large size, complex structure, inherent flexibility and high conformational variability. For the case of the small ribosomal subunit, which caused extreme difficulties, post crystallization treatment by minute amounts of a heteropolytungstate cluster allowed structure determination at atomic resolution. This cluster played a dual role in ribosomal crystallography: providing anomalous phasing power and dramatically increased the resolution, by stabilization of a selected functional conformation. Thus, four out of the fourteen clusters that bind to each of the crystallized small subunits are attached to a specific ribosomal protein in a fashion that may control a significant component of the subunit internal flexibility, by "gluing" symmetrical related subunits. Here we highlight basic issues in the relationship between metal ions and macromolecules and present common traits controlling in the interactions between polymetalates and various macromolecules, which may be extended towards the exploitation of polymetalates for therapeutical treatment.

Entities:  

Year:  2008        PMID: 19915655      PMCID: PMC2757297          DOI: 10.1016/j.molstruc.2008.03.043

Source DB:  PubMed          Journal:  J Mol Struct        ISSN: 0022-2860            Impact factor:   3.196


  75 in total

1.  Crystal structure of a hairpin ribozyme-inhibitor complex with implications for catalysis.

Authors:  P B Rupert; A R Ferré-D'Amaré
Journal:  Nature       Date:  2001-04-12       Impact factor: 49.962

2.  High resolution structure of the large ribosomal subunit from a mesophilic eubacterium.

Authors:  J Harms; F Schluenzen; R Zarivach; A Bashan; S Gat; I Agmon; H Bartels; F Franceschi; A Yonath
Journal:  Cell       Date:  2001-11-30       Impact factor: 41.582

3.  The structural basis of ribosome activity in peptide bond synthesis.

Authors:  P Nissen; J Hansen; N Ban; P B Moore; T A Steitz
Journal:  Science       Date:  2000-08-11       Impact factor: 47.728

4.  Structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression.

Authors:  Anat Bashan; Ilana Agmon; Raz Zarivach; Frank Schluenzen; Joerg Harms; Rita Berisio; Heike Bartels; Francois Franceschi; Tamar Auerbach; Harly A S Hansen; Elizaveta Kossoy; Maggie Kessler; Ada Yonath
Journal:  Mol Cell       Date:  2003-01       Impact factor: 17.970

5.  Structure of the Tetrahymena ribozyme: base triple sandwich and metal ion at the active site.

Authors:  Feng Guo; Anne R Gooding; Thomas R Cech
Journal:  Mol Cell       Date:  2004-11-05       Impact factor: 17.970

Review 6.  Atomic level architecture of group I introns revealed.

Authors:  Quentin Vicens; Thomas R Cech
Journal:  Trends Biochem Sci       Date:  2005-12-13       Impact factor: 13.807

Review 7.  Chemical models for ribozyme action.

Authors:  Tuomas Lönnberg; Harri Lönnberg
Journal:  Curr Opin Chem Biol       Date:  2005-10-17       Impact factor: 8.822

8.  Yeast RNA polymerase II at 5 A resolution.

Authors:  J Fu; A L Gnatt; D A Bushnell; G J Jensen; N E Thompson; R R Burgess; P R David; R D Kornberg
Journal:  Cell       Date:  1999-09-17       Impact factor: 41.582

9.  Functional identification of catalytic metal ion binding sites within RNA.

Authors:  James L Hougland; Alexander V Kravchuk; Daniel Herschlag; Joseph A Piccirilli
Journal:  PLoS Biol       Date:  2005-08-16       Impact factor: 8.029

10.  Observation of internal cleavage and ligation reactions of a ribozyme.

Authors:  Michelle K Nahas; Timothy J Wilson; Sungchul Hohng; Kaera Jarvie; David M J Lilley; Taekjip Ha
Journal:  Nat Struct Mol Biol       Date:  2004-10-10       Impact factor: 15.369

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  11 in total

Review 1.  Large facilities and the evolving ribosome, the cellular machine for genetic-code translation.

Authors:  Ada Yonath
Journal:  J R Soc Interface       Date:  2009-08-05       Impact factor: 4.118

2.  Hen egg-white lysozyme crystallisation: protein stacking and structure stability enhanced by a Tellurium(VI)-centred polyoxotungstate.

Authors:  Aleksandar Bijelic; Christian Molitor; Stephan G Mauracher; Rami Al-Oweini; Ulrich Kortz; Annette Rompel
Journal:  Chembiochem       Date:  2014-12-17       Impact factor: 3.164

3.  The fluctuating ribosome: thermal molecular dynamics characterized by neutron scattering.

Authors:  Giuseppe Zaccai; Francesca Natali; Judith Peters; Martina Řihová; Ella Zimmerman; J Ollivier; J Combet; Marie-Christine Maurel; Anat Bashan; Ada Yonath
Journal:  Sci Rep       Date:  2016-11-16       Impact factor: 4.379

4.  Decavanadate Inhibits Mycobacterial Growth More Potently Than Other Oxovanadates.

Authors:  Nuttaporn Samart; Zeyad Arhouma; Santosh Kumar; Heide A Murakami; Dean C Crick; Debbie C Crans
Journal:  Front Chem       Date:  2018-11-20       Impact factor: 5.221

Review 5.  Stress response as implemented by hibernating ribosomes: a structural overview.

Authors:  Donna Matzov; Anat Bashan; Mee-Ngan F Yap; Ada Yonath
Journal:  FEBS J       Date:  2019-07-15       Impact factor: 5.542

Review 6.  Beyond Charge Balance: Counter-Cations in Polyoxometalate Chemistry.

Authors:  Archismita Misra; Karoly Kozma; Carsten Streb; May Nyman
Journal:  Angew Chem Int Ed Engl       Date:  2019-10-31       Impact factor: 15.336

7.  An intrinsically disordered nascent protein interacts with specific regions of the ribosomal surface near the exit tunnel.

Authors:  Valeria Guzman-Luna; Andrew M Fuchs; Anna J Allen; Alexios Staikos; Silvia Cavagnero
Journal:  Commun Biol       Date:  2021-10-29

8.  Localization and orientation of heavy-atom cluster compounds in protein crystals using molecular replacement.

Authors:  Sven O Dahms; Miriam Kuester; Carsten Streb; Christian Roth; Norbert Sträter; Manuel E Than
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2013-01-19

9.  The Synthesis and Characterization of Aromatic Hybrid Anderson-Evans POMs and their Serum Albumin Interactions: The Shift from Polar to Hydrophobic Interactions.

Authors:  Emir Al-Sayed; Amir Blazevic; Alexander Roller; Annette Rompel
Journal:  Chemistry       Date:  2015-11-03       Impact factor: 5.236

Review 10.  The use of polyoxometalates in protein crystallography - An attempt to widen a well-known bottleneck.

Authors:  Aleksandar Bijelic; Annette Rompel
Journal:  Coord Chem Rev       Date:  2015-09-01       Impact factor: 22.315

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