Prof Carlos Penedo
Professor
Research areas
We are interested in the use and development of novel biophysical techniques to study biomolecular interactions including proteins, DNA and RNA at the level of individual molecules. The advantages of single-molecule detection are many, apart from the fascination of looking at individual biomolecules at work, single-molecule techniques can measure intermediates and follow time-dependent pathways of chemical reactions and folding mechanisms that are difficult or impossible to synchronize at the ensemble level. Thus, single-molecule techniques provide novel insights into how molecules and systems behave, having the advantage that spatial and temporal averaging is avoided, temporal synchronisation is not necessary and novel phenomena, which otherwise are averaged and remain hidden in ensembles, may be discovered. Our aim is to monitor, in real-time, the behaviour of individual biological molecules and complexes, in vitro and in live cells. By combining the dynamic information obtained at the single-molecule or single-complex level with structural and biochemical analyses, we hope to create "molecular movies" of biological processes and from them obtain a deeper understanding of these processes.
http://www.st-andrews.ac.uk/~singlemol/singlemol.html
PhD supervision
- Timothy Redpath
- Yu Sun
- Berta Fatas
- George Kingsley-Moore
- Aakanksha J Shetty
- Fillmon Kubrom
- Amirmohammad Khodabandeh
Selected publications
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Open access
Cotranscriptional folding of a 5́′ stem-loop in the Escherichia coli tbpA riboswitch at single-nucleotide resolution
Hien, E. D. M., St-Pierre, P., Carlos Penedo, J. & Lafontaine, D. A., 15 Nov 2024, In: Journal of Molecular Biology. 436, 22, 15 p., 168771.Research output: Contribution to journal › Article › peer-review
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Open access
Insights into the cotranscriptional and translational control mechanisms of the Escherichia coli tbpA thiamin pyrophosphate riboswitch
Grondin, J. P., Geffroy, M., Simoneau-Roy, M., Chauvier, A., Turcotte, P., St-Pierre, P., Dubé, A., Moreau, J., Massé, E., Penedo, J. C. & Lafontaine, D. A., 17 Oct 2024, In: Communications Biology. 7, 10 p., 1345.Research output: Contribution to journal › Article › peer-review
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Open access
Multiple intermediates in the detergent-induced fusion of lipid vesicles
Dresser, L. G., Kunstmann-Olsen, C., Conteduca, D., Hofmair, C. M., Smith, N., Clark, L., Johnson, S., Penedo, J. C., Leake, M. C. & Quinn, S. D., 19 Sept 2024, In: Communications Materials. 5, 12 p., 195.Research output: Contribution to journal › Article › peer-review
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Topographic fingerprinting of single proteins and proteoforms
Penedo , C., 25 Mar 2024, In: Nature Nanotechnology.Research output: Contribution to journal › Comment/debate › peer-review
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Open access
Conformational rearrangements regulating the DNA repair protein APE1
Komaniecka, N., Porras, M., Cairn, L., Santas, J. A., Ferreiro, N., Penedo , C. & Banuelos, S., 20 Jul 2022, In: International Journal of Molecular Sciences. 23, 14, 14 p., 8015.Research output: Contribution to journal › Article › peer-review
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Open access
A structural intermediate pre-organizes the add adenine riboswitch for ligand recognition
St-Pierre, P., Shaw, E. S., Jacques, S., Dalgarno, P. A., Perez Gonzalez, C., Picard-Jean, F., Penedo , C. & Lafontaine, D. A., 8 May 2021, (E-pub ahead of print) In: Nucleic Acids Research. Advance Article, 14 p.Research output: Contribution to journal › Article › peer-review
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Open access
Fatty acids may influence insulin dynamics through modulation of albumin-Zn2+ interactions
Arya, S., Gourley, A. J., Penedo , J. C., Blindauer, C. A. & Stewart, A. J., 21 Nov 2021, In: BioEssays. 43, 12, 9 p., 202100172.Research output: Contribution to journal › Article › peer-review
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Open access
Monitoring RNA dynamics in native transcriptional complexes
Chauvier, A., St-Pierre, P., Nadon, J.-F., Hien, E., Perez Gonzalez, D. C., Eschbach, S. H., Lamontagne, A.-M., Penedo , C. & Lafontaine, D. A., 9 Nov 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 45, 11 p., e2116155118.Research output: Contribution to journal › Article › peer-review
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Open access
The influence of various regions of the FOXP2 sequence on its structure and DNA binding function
Thulo, M., Rabie, M. A., Pahad, N., Donald, H. L., Blane, A. A., Perumal, C. M., Penedo, C. & Fanucchi, S., Jan 2021, In: Bioscience Reports. 41, 1, 13 p., BSR20202128.Research output: Contribution to journal › Article › peer-review
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Open access
Functional 3D architecture in an intrinsically disordered E3 ligase domain facilitates ubiquitin transfer
Murphy, P., Xu, Y., Rouse, S. L., Jaffray, E. G., Plechanovova, A., Matthews, S. J., Penedo, C. & Hay, R. T., 30 Jul 2020, In: Nature Communications. 11, 13 p., 3807.Research output: Contribution to journal › Article › peer-review