Literature DB >> 23064646

Structural insights into ligand binding and gene expression control by an adenosylcobalamin riboswitch.

Alla Peselis1, Alexander Serganov.   

Abstract

Coenzyme B(12) has a key role in various enzymatic reactions and controls expression of bacterial genes through riboswitches. Here we report the crystal structure of the Symbiobacterium thermophilum B(12) riboswitch bound to its ligand adenosylcobalamin. The riboswitch forms a unique junctional structure with a large ligand-binding pocket tailored for specific recognition of the adenosyl moiety and flanked by structural elements that stabilize the regulatory region and enable control of gene expression.

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Year:  2012        PMID: 23064646     DOI: 10.1038/nsmb.2405

Source DB:  PubMed          Journal:  Nat Struct Mol Biol        ISSN: 1545-9985            Impact factor:   15.369


  20 in total

1.  An adenosyl-cobalamin (coenzyme-B12)-repressed translational enhancer in the cob mRNA of Salmonella typhimurium.

Authors:  S Ravnum; D I Andersson
Journal:  Mol Microbiol       Date:  2001-03       Impact factor: 3.501

2.  Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria.

Authors:  Alexander S Mironov; Ivan Gusarov; Ruslan Rafikov; Lubov Errais Lopez; Konstantin Shatalin; Rimma A Kreneva; Daniel A Perumov; Evgeny Nudler
Journal:  Cell       Date:  2002-11-27       Impact factor: 41.582

3.  Ribosomal protein S15 from Thermus thermophilus--cloning, sequencing, overexpression of the gene and RNA-binding properties of the protein.

Authors:  A Serganov; A Rak; M Garber; J Reinbolt; B Ehresmann; C Ehresmann; M Grunberg-Manago; C Portier
Journal:  Eur J Biochem       Date:  1997-06-01

4.  The corrin moiety of coenzyme B12 is the determinant for switching the btuB riboswitch of E. coli.

Authors:  Sofia Gallo; Michael Oberhuber; Roland K O Sigel; Bernhard Kräutler
Journal:  Chembiochem       Date:  2008-06-16       Impact factor: 3.164

5.  Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression.

Authors:  Wade Winkler; Ali Nahvi; Ronald R Breaker
Journal:  Nature       Date:  2002-10-16       Impact factor: 49.962

6.  The structural basis for molecular recognition by the vitamin B 12 RNA aptamer.

Authors:  D Sussman; J C Nix; C Wilson
Journal:  Nat Struct Biol       Date:  2000-01

7.  Comparative genomics of the vitamin B12 metabolism and regulation in prokaryotes.

Authors:  Dmitry A Rodionov; Alexey G Vitreschak; Andrey A Mironov; Mikhail S Gelfand
Journal:  J Biol Chem       Date:  2003-07-17       Impact factor: 5.157

8.  Features and development of Coot.

Authors:  P Emsley; B Lohkamp; W G Scott; K Cowtan
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-03-24

9.  A trans-acting riboswitch controls expression of the virulence regulator PrfA in Listeria monocytogenes.

Authors:  Edmund Loh; Olivier Dussurget; Jonas Gripenland; Karolis Vaitkevicius; Teresa Tiensuu; Pierre Mandin; Francis Repoila; Carmen Buchrieser; Pascale Cossart; Jörgen Johansson
Journal:  Cell       Date:  2009-11-13       Impact factor: 41.582

10.  Coenzyme recognition and gene regulation by a flavin mononucleotide riboswitch.

Authors:  Alexander Serganov; Lili Huang; Dinshaw J Patel
Journal:  Nature       Date:  2009-01-25       Impact factor: 49.962

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  43 in total

1.  Role of lysine binding residues in the global folding of the lysC riboswitch.

Authors:  Erich Smith-Peter; Anne-Marie Lamontagne; Daniel A Lafontaine
Journal:  RNA Biol       Date:  2015       Impact factor: 4.652

2.  Using Rosetta for RNA homology modeling.

Authors:  Andrew M Watkins; Ramya Rangan; Rhiju Das
Journal:  Methods Enzymol       Date:  2019-06-11       Impact factor: 1.600

3.  Tuning a riboswitch response through structural extension of a pseudoknot.

Authors:  Marie F Soulière; Roger B Altman; Veronika Schwarz; Andrea Haller; Scott C Blanchard; Ronald Micura
Journal:  Proc Natl Acad Sci U S A       Date:  2013-08-12       Impact factor: 11.205

4.  Cobalamin riboswitches exhibit a broad range of ability to discriminate between methylcobalamin and adenosylcobalamin.

Authors:  Jacob T Polaski; Samantha M Webster; James E Johnson; Robert T Batey
Journal:  J Biol Chem       Date:  2017-05-08       Impact factor: 5.157

5.  Consistent global structures of complex RNA states through multidimensional chemical mapping.

Authors:  Clarence Yu Cheng; Fang-Chieh Chou; Wipapat Kladwang; Siqi Tian; Pablo Cordero; Rhiju Das
Journal:  Elife       Date:  2015-06-02       Impact factor: 8.140

6.  Analytical ultracentrifugation studies of oligomerization and DNA-binding of TtCarH, a Thermus thermophilus coenzyme B12-based photosensory regulator.

Authors:  Ana I Díez; Juan Manuel Ortiz-Guerrero; Alvaro Ortega; Montserrat Elías-Arnanz; S Padmanabhan; José García de la Torre
Journal:  Eur Biophys J       Date:  2013-03-20       Impact factor: 1.733

Review 7.  Structure and function of pseudoknots involved in gene expression control.

Authors:  Alla Peselis; Alexander Serganov
Journal:  Wiley Interdiscip Rev RNA       Date:  2014-07-08       Impact factor: 9.957

8.  Riboswitches. A riboswitch-containing sRNA controls gene expression by sequestration of a response regulator.

Authors:  Sruti DebRoy; Margo Gebbie; Arati Ramesh; Jonathan R Goodson; Melissa R Cruz; Ambro van Hoof; Wade C Winkler; Danielle A Garsin
Journal:  Science       Date:  2014-08-22       Impact factor: 47.728

Review 9.  Themes and variations in riboswitch structure and function.

Authors:  Alla Peselis; Alexander Serganov
Journal:  Biochim Biophys Acta       Date:  2014-02-28

Review 10.  A decade of riboswitches.

Authors:  Alexander Serganov; Evgeny Nudler
Journal:  Cell       Date:  2013-01-17       Impact factor: 41.582

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