Project information
Structural studies of protein-RNA complexes involved in RNA quality control

Project Identification

GA204/08/1212

Project Period

1/2008 - 12/2010

Investor / Pogramme / Project type

Czech Science Foundation

Standard Projects

MU Faculty or unit

Faculty of Science

prof. Mgr. Richard Štefl, Ph.D.

Keywords

To control the quality of RNA biogenesis in the nucleus, cells use sophisticated molecular machines. These machines recognize and degrade not only RNA trimmings-the leftovers of RNA processing-but also improperly processed RNAs that contain defects. Using this mechanism, cells ensure that only high-quality RNAs are engaged in protein synthesis and other cellular processes. One of the RNA quality-control pathways involves the exosome and the Trf4/Air2/Mtr4 polyadenylation (TRAMP) complex. The TRAMP complex stimulates activity of the exosome and recruit its RNA substrates. We aim to study how the TRAMP complex identifies the aberrant RNAs and thus recruits them for the degradation machinery. Here we propose to use multidimensional NMR spectroscopy to determine the three-dimensional structure of several protein-RNA complexes that are involved in RNA quality control apparatus. The project is focused on interactions of the RNA-binding subunits of the TRAMP complex and Trf4 with RNA substrates. The

Publications

Total number of publications: 10

2011

1H, 13C, and 15N resonance assignments for the CTD-Interacting Domain of Nrd1 bound to Ser5-phosphorylated CTD of RNA Polymerase II

KUBÍČEK Karel PASULKA Josef ČERNÁ Hana LÖHR Frank ŠTEFL Richard

Article in Periodical

Biomolecular NMR Assignments, year: 2011, volume: 5, edition: 2, DOI
Recognition of transcription termination signal by the nuclear polyadenylated RNA-binding (Nab)3 protein

HÓBOR Fruzsina PERGOLI Roberto KUBÍČEK Karel HROŠŠOVÁ Dominika BAČÍKOVÁ Veronika ZIMMERMANN Michal PASULKA Josef HOFR Ctirad VAŇÁČOVÁ Štěpánka ŠTEFL Richard

Article in Periodical

The Journal of Biological Chemistry, year: 2011, volume: 286, edition: 5, DOI

2010

(1)H, (13)C, and (15)N chemical shift assignments for the RNA recognition motif of Nab3.

PERGOLI Roberto KUBÍČEK Karel HÓBOR Fruzsina PASULKA Josef ŠTEFL Richard

Article in Periodical

Biomolecular NMR Assignments, year: 2010, volume: 4, edition: 1, DOI
1H, 13C, and 15N chemical shift assignments of ZCCHC9

SAŇUDO ARCE Maria JACKO Martin RAMMELT Christiane VAŇÁČOVÁ Štěpánka ŠTEFL Richard

Article in Periodical

Biomolecular NMR Assignments, year: 2010, volume: 5, edition: 1, DOI
The computational view inside the dynamical behavior of the RNA-binding motive

PASULKA Josef KOČA Jaroslav ŠTEFL Richard

Conference abstract

Year: 2010, type: Conference abstract
The Solution Structure of the ADAR2 dsRBM-RNA Complex Reveals a Sequence-Specific Readout of the Minor Groove

ŠTEFL Richard OBERSTRASS Florian HOOD Jeniffer JOURDAN Muriel ZIMMERMANN Michal SKŘÍŠOVSKÁ Lenka MARIS Christophe PENG Li HOFR Ctirad EMESON Ronald ALLAIN Frederic

Article in Periodical

CELL, year: 2010, volume: 143, edition: 2

2009

Recognition of phosphorylated CTD of RNA Pol II by Nrd1

ČERNÁ Hana KUBÍČEK Karel ŠTEFL Richard

Conference abstract

Year: 2009, type: Conference abstract
Structure and RNA binding of Nab3

HÓBOR Fruzsina KUBÍČEK Karel PASULKA Josef ŠTEFL Richard

Conference abstract

Year: 2009, type: Conference abstract
The molecular dynamics study of the RNA-binding domain of ADAR2 bound to dsRNA

PASULKA Josef KOČA Jaroslav ŠTEFL Richard

Conference abstract

Year: 2009, type: Conference abstract
Transcription termination of nonpolyadenylated transcripts

HÓBOR Fruzsina ČERNÁ Hana BAČÍKOVÁ Veronika PASULKA Josef KUBÍČEK Karel ŠTEFL Richard

Conference abstract

Year: 2009, type: Conference abstract