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  Structural Studies of proteins involved in ribosome biogenesis


   School of Biological Sciences

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Dr A Cook  No more applications being accepted  Funded PhD Project (European/UK Students Only)

About the Project

The production of ribosomes in eukaryotes is a highly complex process involving several sub-cellular compartments and more than 200 associated ribosome biogenesis factors. The process starts in the nucleolus where the mature 18S, 5.8S and 25S ribosomal RNAs are transcribed as a single transcript and immediately associate with both ribosomal proteins and assembly factors. The pre-40S and pre-60s ribosomal particles are separated relatively early in assembly and follow different assembly pathways. They are each exported to the cytoplasm where the final maturation steps occur. This process is currently best understood in budding yeast. Biochemical analysis of yeast and human pre-40S particles has shown that the same set of 7 late-acting biogenesis factors is exported with the pre-40S particle in both organisms, indicating that this process is highly conserved. Although we now have an inventory of ribosome biogenesis factors, the function of many of the proteins involved and the mechanism of their action in ribosome biogenesis is unknown. This project will involve the crystallization and structural analysis of proteins involved in late pre-40S ribosome maturation and their complexes with rRNA fragments. The structural studies will be used to design mutants that can be tested in vivo to gain a better mechanistic understanding of the role of these proteins.

Funding Notes

If you are an overseas student, you should only apply if you have identified a source of funding.

References

Distinct cytoplasmic maturation steps of 40S ribosomal subunit precursors require hRio2. Zemp et al (2009) J. Cell Biology 185:1167-80

Cracking pre-40S ribosomal subunit structure by systematic analyses of RNA-protein cross-linking. Granneman et al (2010) EMBO J. 29:2026-36

Protein-protein interactions within late pre-40S ribosomes. Campbell and Karbstein (2011) PLoS One. 6:e16194

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Project supervisors

Career overview

Dr. Atlanta G. Cook is a Wellcome Senior Research Fellow at the Wellcome Centre for Cell Biology in Edinburgh, a position held since 2016. Prior to this, Dr. Cook was an MRC Career Development Fellow at the same centre from 2011 to 2016. Dr. Cook's postdoctoral experience includes a role as a Research Fellow at the Max Planck Institute for Biochemistry in Martinsried, Germany, from 2007 to 2010, and at the European Molecular Biology Laboratory (EMBL) in Heidelberg, Germany, from 2004 to 2007. Dr. Cook obtained a DPhil in Biochemistry from Oxford University, where studies were conducted from 1999 to 2003, following an MBiochemistry degree at the same institution from 1995 to 1999.


Research interests

Dr. Cook's research focuses on the control of gene expression at the levels of mRNA transcription and post-transcriptional processes, including splicing, localization, modification, editing, and degradation. They aim to gain a mechanistic understanding of these processes by investigating the interactions between protein and nucleic acid components at the molecular level. Dr. Cook employs structural approaches to address mechanistic questions regarding how protein-RNA interactions influence RNA maturation and editing, as well as the recruitment of transcriptional repressors to methylated DNA. By integrating structural studies with biochemical, biophysical, and cell-based functional assays, they provide valuable insights into these molecular processes.

View Dr. Atlanta G. Cook's profile