Sonderforschungsbereich 902

Conformational switch in the ribosomal protein S1 guides unfolding of structured RNAs for translation initiation.

N.S. Qureshi, S. Sreeramulu, J.K. Bains, H. Schwalbe*, B. Fürtig*

Nucleic Acids Res. in press

Adenine protonation  enables c-di-GMP binding to cyclic-GAMP sensing riboswitches.

H. Keller, A. K. Weickhmann, T. Bock, J. Wöhnert.
RNA. 2018

Full publication here: Adenine protonation enables cyclic-di-GMP binding to cyclic-GAMP sensing riboswitches.

Abstract:  Read more …

An intricate balance of hydrogen bonding, ion atmosphere and
dynamics facilitates a seamless uracil to cytosine substitution in the
U-turn of the neomycin-sensing riboswitch.

M. Krepl, J. Vögele, H. Kruse, E. Duchardt-Ferner, J. Wöhnert, J.
Sponer.
Nucleic Acids Res. 2018

Full publication here: An intricate balance of hydrogen bonding, ion atmosphere and dynamics facilitates a seamless uracil to cytosine substitution in the U-turn of the neomycin-sensing riboswitch

Abstract:  Read more …

The OB-fold proteins of the Trypanosoma brucei editosome execute RNA-chaperone activity,

C. Voigt, M. Dobrychłop, E. Kruse, A. Czerwoniec, J. M. Kasprzak, P. Bytner, C. Del Campo, W-M. Leeder, J. M. Bujnicki, H. U. Göringer.
Nucleic Acids Research. 2018

Full publication here: The OB-fold proteins of the Trypanosoma brucei editosome execute RNA-chaperone activity

Abstract:  Read more …

Chemo-enzymatic synthesis of position-specifically modified RNA for biophysical studies including light control and NMR spectroscopy.

Schwalbe H, Keyhani S, Goldau T, Blümler A, Heckel A.
Angew Chem Int Ed Engl. 2018

Full publication here: Chemo-enzymatic synthesis of position-specifically modified RNA for biophysical studies including light control and NMR spectroscopy.

Abstract:  Read more …

Correlative Single-Molecule FRET and DNA-PAINT Imaging.

Deußner-Helfmann NS, Auer A, Strauss MT, Malkusch S, Dietz MS, Barth HD, Jungmann R, Heilemann M.
Nano Lett. 2018

Full publication here: Correlative Single-Molecule FRET and DNA-PAINT Imaging

Abstract:  Read more …

A semi-rigid isoindoline-derived nitroxide spin label for RNA.

Gophane DB, Endeward B, Prisner T F, and Sigurdsson ST.
Org. Biomol. Chem, 2018 Advance Article.

Full publication here: A semi-rigid isoindoline-derived nitroxide spin label for RNA

Abstract:  Read more …

Riboswitching with ciprofloxacin—development and characterization of a novel RNA regulator

Groher F, Bofill-Bosch C, Schneider C, raun J, Jager S, Geißler K, Hamacher K, Süß B.
Nucleic Acids Research, 2018 Jan 13.

Full publication here: Riboswitching with ciprofloxacin—development and characterization of a novel RNA regulator

Abstract:  Read more …

Evaluation of 15N-detected H-N correlation experiments on increasingly large RNAs.

Schnieders R, Richter C, Warhaut S, de Jesus V, Keyhani S, Duchardt-Ferner E, Keller H, Wöhnert J, Kuhn LT, Breeze AL, Bermel W, Schwalbe H, Fürtig B.
J. Biomol. NMR, 2017 Sep 6.

Full publication here: Evaluation of 15N-detected H–N correlation experiments on increasingly large RNAs

Abstract:  Read more …

Pausing guides RNA folding to populate transiently stable RNA structures for riboswitch-based transcription regulation.

Steinert’ H, Sochor’ F, Wacker A, Buck J, Helmling C, Hiller F, Keyhani S, Noeske J, Grimm S, Rudolph MM, Keller H, Mooney RA, Landick R, Süß B, Fürtig B, Wöhnert J, Schwalbe H. eLife. 2017 May 25. Abstract Read more …

Ligand-modulated folding of the full-length adenine riboswitch probed by NMR and single-molecule FRET spectroscopy.

SWarhaut S, Mertinkus KR, Höllthaler P:, Fürtig B, Heilemann M, Hengesbach M, Schwalbe H.
Nucl. Acids Res., 2017 May 19.

Full publication here: Ligand-modulated folding of the full-length adenine riboswitch probed by NMR and single-molecule FRET spectroscopy.

Abstract:  Read more …

Impact of spin label rigidity on extent and accuracy of distance information from PRE data.

Schnorr KA, Gophane DB, Helmling C, Cetiner E, Pasemann K, Fürtig B, Wacker A, Qureshi NS, Gränz M, Barthelmes D, Jonker HRA, Stirnal E, Sigurdsson ST, Schwalbe H.
Nucleic Acids Research, 2017 May 12.

Full publication here: Impact of spin label rigidity on extent and accuracy of distance information from PRE data.

Abstract:  Read more …

Structure of the 40S–ABCE1 post-splitting complex in ribosome recycling and translation initiation.

Heuer A, Gerovac M, Schmidt C, Trowitzsch S, Preis A, Kötter P, Berninghausen O, Becker T, Beckmann R, Tampé R.
Nature Structural & Molecular Biology, 2017 Apr 3.

Abstract   Read more …

Activity-dependent spatially localized miRNA maturation in neuronal dendrites

Sambandan S, Akbalik G, Kochen L, Rinne J, Kahlstatt J, Glock C, Tushev G, Alvarez-Castelao B, Heckel A, Schuman EM
Science. 2017 Feb 10. Abstract   Read more …

NMR structural profiling of transcriptional intermediates reveals riboswitch regulation by metastable RNA conformations.

Helmling C, Wacker A, Wolfinger MT, Hofacker IL, Hengesbach M, Fürtig B, Schwalbe H.
J. Am. Chem. Soc., 2017 Jan 30.

Full publication here: NMR structural profiling of transcriptional intermediates reveals riboswitch regulation by metastable RNA conformations.

Abstract:  Read more …

Ligand binding to 2΄-deoxyguanosine sensing riboswitch in metabolic context

Kim YB, Wacker A, von Laer K, Rogov VV, Suess B, Schwalbe H.
Nucleic Acids Res, 2017 Jan 23. Abstract   Read more …

Noncovalent and site-directed spin labeling of duplex RNA

Kamble NR, Gränz M, Prisner TF, Sigurdssond ST.
Chem. Commun., 2016 Nov 30. Abstract   Read more …

A Stably Protonated Adenine Nucleotide with a Highly Shifted pKa Value Stabilizes the Tertiary Structure of a GTP-Binding RNA Aptamer

Wolter AC, Weickhmann AK, Nasiri, AH, Hantke K, Ohlenschläger O, Wunderlich CH, Kreutz C, Duchardt-Ferner E, Wöhnert J.
Angewandte Chemie Int. Ed., 2017 Jan 2. Abstract   Read more …

Structure of RNA polymerase I transcribing ribosomal DNA genes

Neyer S, Kunz M, Geiss C, Hantsche M, Hodirnau VV, Seybert A, Engel C, Scheffer MP, Cramer P, Frangakis AS.

Nature 540, 670-610. 2016 Nov 14 Abstract Read more …

An intermolecular G-quadruplex as the basis for GTP recognition in the class V-GTP aptamer.

Nasiri AH, Wurm JP, Immer C, Weickhmann AK, Wöhnert J.

RNA 11, 1750-1759. 2016 Nov 22 Abstract Read more …

Structure of the ribosome post-recycling complex probed by chemical cross-linking and mass spectrometry

Kiosze-Becker K, Ori A, Gerovac M, Heuer A, Nürenberg-Goloub E, Rashid UJ, Becker T, Beckmann R, Beck M, Tampé R.

Nat Commun. 2016 Nov 8;7:13248 Abstract or full publication here. See also press release of the Goethe University Read more …

Unconventional secretory processing diversifies neuronal ion channel properties

Hanus C, Geptin H, Tushev G, Garg S, Alvarez-Castelao B, Sambandan S, Kochen L, Hafner AS, Langer JD, Schuman EM

eLife 2016;5:e20609 Abstract Read more …

Adenosine-to-inosine RNA editing controls cathepsin S expression in atherosclerosis by enabling HuR-mediated post-transcriptional regulation

Stellos K., Gatsiou A, Stamatelopoulos K, Perisic Matic L, John D, Lunella FF, Jaé N, Rossbach O, Amrhein C, Sigala F, Boon RA, Fürtig B, Manavski Y, You X, Uchida S, Keller T, Boeckel JN, Franco-Cereceda A, Maegdefessel L, Chen W, Schwalbe H, Bindereif A, Eriksson P, Hedin U, Zeiher AM, Dimmeler S Nature Medicine 2016 Sep 5. Abstract   Read more …

SR proteins are NXF1 adaptors that link alternative RNA processing to mRNA export.

Müller-McNicoll M, Botti V, De Jesus Domingues AM, Brandl H, Schwich OD, Steiner MC, Curk T, Poser I, Zarnack K, Neugebauer KM. Genes & Developement 2016 Mar 1. Abstract   Read more …

Photoresponsive Formation of an Intermolecular Minimal G-Quadruplex Motif.

Thevarpadam J, Bessi I, Binas O, Gonçalves DP, Slavov C, Jonker HR, Richter C, Wachtveitl J, Schwalbe H, Heckel A. Angew Chem Int Ed Engl. 2016 Feb 18. Abstract  Read more …

Direct 13C-detected NMR Experiments for Mapping and Characterization of Hydrogen Bonds in RNA.

Fürtig B, Schnieders R, Richter C, Zetzsche H, Keyhani S, Helmling C, Kovacs H, Schwalbe H.
J. Biomol. NMR, 2016 Feb 6.

Full publication here: Direct 13C-detected NMR Experiments for Mapping and Characterization of Hydrogen Bonds in RNA.

Abstract:  Read more …

What a differrence an OH Makes: Conformational Dynamics as the Basis for the Ligand Specificity of the Neomycin-Sensing Riboswitch.

Duchardt-Ferner E, Gottstein-Schmidtke SR, Weigand JE, Ohlenschläger O, Wurm JP, Hammann C, Suess B, Wöhnert J. Angew Chem Int Ed Engl. 2016 Jan 22. Abstract  Read more …

The RNA chaperone activity of the Trypanosoma brucei editosome raises the dynamic of bound pre-mRNAs.

Leeder WM, Voigt C, Brecht M, Göringer HU. Sci Rep. 2016 Jan 19. Abstract Read more …

19F-labeling of the adenine H2-site to study large RNAs by NMR spectroscopy.

Sochor F, Silvers R, Müller D, Richter C, Fürtig B, Schwalbe H. J Biomol NMR. 2015 Dec 24. Abstract Read more …

The three possible 2-(pyrenylethynyl) adenosines: rotameric energy barriers govern the photodynamics of these structural isomers.

Reuss AJ, Grünewald C, Braun M, Engels JW, Wachtveitl J. Chemphyschem. 2015 Dec 4. Abstract Read more …

Plant-Specific Features of Ribosome Biogenesis.

Weis BL, Kovacevic J, Missbach S, Schleiff E. Trends Plant Sci. 2015 Nov. Abstract Read more …

Ultrafast Spectroscopy of Hydroxy-Substituted Azobenzenes in Water.

Steinwand S, Halbritter T, Rastädter D, Ortiz-Sánchez JM, Burghardt I, Heckel A, Wachtveitl J. Chemistry. 2015 Oct 26. Abstract Read more …

Dynamic nuclear polarization of nucleic acid with endogenously bound manganese.

Wenk P, Kaushik M, Richter D, Vogel M, Suess B, Corzilius B. J Biomol NMR. 2015 Sept. Abstract Read more …

Rapid NMR screening of RNA secondary structure and binding.

Helmling C, Keyhani S, Sochor F, Fürtig B, Hengesbach M, Schwalbe H. J. Biomol. NMR., 2015 Jul 19. Abstract Read more …

Mechanistic insights into temperature-dependent regulation of the simple cyanobacterial hsp17 RNA thermometer at base-pair resolution.

Wagner D, Rinnenthal J, Narberhaus F, Schwalbe H. Nucleic Acids Res. 2015 Jun 23. Abstract Read more …

Direct visualization of newly synthesized target proteins in situ.

Tom Dieck S, Kochen L, Hanus C, Heumüller M, Bartnik I, Nassim-Assir B, Merk K, Mosler T, Garg S, Bunse S, Tirrell DA, Schuman EM. Nat Methods. 2015 May. Abstract Read more …

Differential scanning fluorimetry for monitoring RNA stability.

Silvers R, Keller H, Schwalbe H, Hengesbach M. Chembiochem 2015 May.
Full publication here. Read more …

atBRX1-1 and atBRX1-2 are involved in an alternative rRNA processing pathway in Arabidopsis thaliana.

Weis BL, Palm D, Missbach S, Bohnsack MT, Schleiff E. RNA. 2015 Mar. Abstract Read more …

Multiple conformational states of riboswitches fine-tune gene regulation.

Fürtig B, Nozinovic S, Reining A, Schwalbe H. Curr Opin Struct Biol. 2015 Feb. Abstract Read more …

Neural circular RNAs are derived from synaptic genes and regulated by development and plasticity.

You X, Vlatkovic I, Babic A, Will T, Epstein I, Tushev G, Akbalik G, Wang M, Glock C, Quedenau C, Wang X, Hou J, Liu H, Sun W, Sambandan S, Chen T, Schuman EM, Chen W. Nat Neurosci. 2015 Feb 25. Press release Read more …

Reversible photoswitching of RNA hybridization at room temperature with an azobenzene C-nucleoside.

Goldau T, Murayama K, Brieke C, Steinwand S, Mondal P, Biswas M, Burghardt I, Wachtveitl J, Asanuma H, Heckel A. Chemistry. 2015 Feb 9. Abstract Read more …

The 60S associated ribosome biogenesis factor LSG1-2 is required for 40S maturation in Arabidopsis thaliana.

Weis BL, Missbach S, Marzi J, Bohnsack MT, Schleiff E. Plant J. 2014 Dec. Abstract Read more …

Tetracycline Determines the Conformation of Its Aptamer at Physiological Magnesium Concentrations.

Reuss AJ, Vogel M, Weigand JE, Suess B, Wachtveitl J. Biophys J. 2014 Dec 16. Abstract Read more …

Three-dimensional protein networks assembled by two-photon activation.

Gatterdam V, Ramadass R, Stoess T, Fichte MA, Wachtveitl J, Heckel A, Tampé R. Angew Chem Int Ed Engl. 2014 May 26. Abstract Read more …

Photo-physical properties of 2-(1-ethynylpyrene)-adenosine: Influence of hydrogen bonding on excited state properties.

Trojanowski P, Plötner J, Grünewald C, Graupner F, Slavov C, Reuss A, Braun M, Engels JW, Wachtveitl J. Phys Chem Chem Phys, 2014 May 14. Abstract Read more …

Mechanism of the photoinduced uncaging reaction of puromycin protected by a 6-nitroveratryloxycarbonyl group.

Kohl-Landgraf J, Buhr F, Lefrancois D, Mewes JM, Schwalbe H, Dreuw A, Wachtveitl J. J Am Chem Soc, 2014 Mar 05. Abstract Read more …

Ultrafast C_spiro-O Dissociation via a Conical Intersection Drives Spiropyrane to Merocyanine Photoswitching.

Prager S, Burghardt I, Dreuw A. J Phys Chem A. 2014 Feb 27. Abstract Read more …

The evolution of the ribosome biogenesis pathway from a yeast perspective.

Ebersberger I, Simm S, Leisegang MS, Schmitzberger P, Mirus O, von Haeseler A, Bohnsack MT, Schleiff E. Nucleic Acids Res. 2014 Feb 1. Abstract Read more …

Development of β-Lactamase as a Tool for Monitoring Conditional Gene Expression by a Tetracycline-Riboswitch in Methanosarcina acetivorans.

Demolli S, Geist M, Weigand J, Matschiavelli N, Suess B and Rother M. Archaea, 2014 Jan 20. Abstract Read more …

Influence of the absolute configuration of npe-caged cytosine on DNA single base pair stability.

Steinert HS, Schäfer F, Jonker HR, Heckel A, Schwalbe H. Angew Chem Int Ed Engl, 2014 Jan 20. Abstract Read more …