The Laboratory for Structural and Molecular Biology - LaBiME – at the Faculty of Pharmacy of the Federal University of Rio de Janeiro (UFRJ) coordinated by Prof. Yraima Cordeiro focuses in the molecular and structural characterization of proteins and macromolecules that are potential therapeutic targets.


Among the therapeutic targets we are especially interested in the characterization of proteins involved in amyloidosis and degenerative diseases. From the knowledge of the structure and function of these proteins, we aim to understand the mechanisms that lead to their ordered aggregation and we are also involved in the selection and design of drugs that act on the studied therapeutic targets. The applied methodologies involve spectroscopic techniques such as fluorescence, circular dichroism, static and dynamic light scattering, infrared spectroscopy, and also small angle X-ray scattering.



Cell biology techniques are also employed for evaluation of toxicity of protein aggregates on cells in culture and the effect of selected compounds as potential therapeutic agents. Our goal is to correlate structure and function of proteins, as well as to understand their interactions with molecular partners, as well as methods of therapeutic intervention.


Selected publications


The research group includes a Post-Doc, a Technician, Graduate and Undergraduate Students.




Head of LaBiME

Yraima Cordeiro obtained her PhD in Biological Chemistry at the Federal University of Rio de Janeiro in 2005.


Her main research interests involve folding/misfolding and aggregation of proteins related to degenerative diseases, with a focus in prion protein. The selection and evaluation of therapeutic compounds against prion diseases is also a main research topic from her laboratory.


She is an Associate Professor at the Faculty of Pharmacy, and is head of the Laboratory for Structural and Molecular Biology (LaBiME) since 2009.


Cordeiro's research team includes a Post-Doc, a Technician, Graduate and Undergraduate Students.


1. CORDEIRO, Y.; Macedo, Bruno; Silva, Jerson, L.; Gomes, M. P. B. Pathological implications of nucleic acid interactions with proteins associated with neurodegenerative diseases. Biophysical Reviews, 6, 97-110, 2014. (Look here)


2. Ferreira, N. C.; Marques, I.; Da Conceição, W. J. A.; Macedo, Bruno; Machado, C. S.; Mascarello, A.; CHIARADIA-DELATORRE, L. D.; Yunes, R. A.; Nunes, R. J.; HUGHSON, A. G.; RAYMOND, L. D.; PASCUTTI, P. G.; CAUGHEY, B.; CORDEIRO, Y. Anti-Prion Activity of a Panel of Aromatic Chemical Compounds: In Vitro and In Silico Approaches. Plos One, 9, e84531, 2014. (Look here)


3. Gonçalves, K. M.; BARBOSA, L. R. S.; Lima, L. M. T. R.; Cortines, J. R.; Kalume, D. E.; Leal, I. C. R.; Miranda, L. S. M.; Souza, R. O. M. A.; Cordeiro, Yraima. Conformational dissection of Thermomyces lanuginosus lipase in solution. Biophysical Chemistry, 185, 88-97, 2014. (Look here)


4. Chaves, J.A.P.; SANCHEZ-LOPEZ, C.; Gomes, M. P. B.; SISNANDE, T.; Macedo, B.; End de Oliveira, V.; Braga, Carolina A. C. A.; Rangel, Luciana P.; Silva, Jerson, L.; QUINTANAR, L.; Cordeiro, Yraima. Biophysical and morphological studies on the dual interaction of non-octarepeat prion protein peptides with copper and nucleic acids. Journal of Biological Inorganic Chemistry, 19, 839-851, 2014. (Look here)


5. Vieira, T. C. R. G.; Cordeiro, Yraima.; CAUGHEY, B.; Silva, Jerson, L. Heparin binding confers prion stability and impairs its aggregation. The FASEB Journal, 28, 2667-2676, 2014. (Look here)


6. Cordeiro, Yraima; Foguel, D.; Silva, J. L. Pressure-Temperature Folding Landscape in Proteins Involved in Neurodegenerative Diseases and Cancer. Biophysical Chemistry, 183, 9-18, 2013. (Look here)


7. Silva, Jerson, L.; Rangel, Luciana P.; Ferraz, D.; Cordeiro, Yraima; De Moura-Gallo, Claudia V. Expanding the prion concept to cancer biology: dominant-negative effect of aggregates of mutant p53 tumour suppressor. Bioscience Reports, 33, 593-603, 2013. (Look here)


8. de Oliveira, G. A. P.; PEREIRA, E. G.; FERRETTI, G. D. S.; Valente, A. P.; Cordeiro, Y.; Silva, J. L. Intramolecular dynamics within the N-Cap-SH3-SH2 regulatory unit of the c-Abl tyrosine kinase reveal targeting to the cellular membrane. The Journal of Biological Chemistry, 288, 28331-28345, 2013. (Look here)


9. Gomes, Mariana P. B.; Vieira, Tuane C. R. G.; Cordeiro, Yraima; Silva, Jerson L. The role of RNA in mammalian prion protein conversion. Wiley Interdisciplinary Reviews: RNA, 3, 415-428, 2012. (Look here)


10. Linden, R.; CORDEIRO, Y.; Lima, L. M. T. R. Allosteric function and dysfunction of the prion protein. Cellular and Molecular Life Sciences, 69, 1105-1124, 2012. (Look here)


11. Macedo, Bruno; Millen, Thiago A.; Braga, Carolina A. C. A.; Gomes, Mariana P. B.; Ferreira, Priscila S.; Kraineva, Julia; Winter, Roland; Silva, Jerson Lima; Cordeiro, Yraima. Non-Specific Prion Protein-Nucleic Acid Interactions Lead to Different Aggregates and Cytotoxic Species. Biochemistry, 51, 5402-5413, 2012. (Look here)


12. Ano Bom, A. P. D.; Rangel, L. P.; Costa, D. C. F.; de Oliveira, G. A. P.; Sanches, D.; Braga, C. A.; Gava, L. M.; Ramos, C. H. I.; Cepeda, A. O. T.; Stumbo, A. C.; De Moura Gallo, C. V.; Cordeiro, Y.; Silva, J. L. Mutant p53 aggregates into prion-like amyloid oligomers and fibrils: Implications for cancer. The Journal of Biological Chemistry, 287, 28152-28162, 2012. (Look here)


13. Vieira, Tuane C. R. G.; Reynaldo, Daniel P.; Gomes, Mariana P. B.; Almeida, Marcius S.; Cordeiro, Yraima; Silva, Jerson L. Heparin Binding by Murine Recombinant Prion Protein Leads to Transient Aggregation and Formation of RNA-Resistant Species. Journal of the American Chemical Society, 133, 334-344, 2011. (Look here)


14. Silva, Jerson L.; Vieira, Tuane C.R.G.; Gomes, Mariana P.B.; Rangel, Luciana P.; Scapin, Sandra M.N.; Cordeiro, Yraima. Experimental approaches to the interaction of the prion protein with nucleic acids and glycosaminoglycans: Modulators of the pathogenic conversion. Methods, 53, 306-317, 2011. (Look here)


15. Silva, Jerson, L.; Vieira, T. C. R. G.; Gomes, M. P. B.; Cordeiro, Y. PrP interactions with nucleic acids and glycosaminoglycans in function and disease. Frontiers in Bioscience, 15, 132-150, 2010. (Look here)


16. Silva, Jerson L.; Vieira, Tuane C. R. G.; Gomes, Mariana P. B.; Bom, Ana Paula Ano; Lima, Luis Mauricio T. R.; Freitas, Monica S.; Ishimaru, Daniella; Cordeiro, Yraima; Foguel, Debora. Ligand Binding and Hydration in Protein Misfolding: Insights from Studies of Prion and p53 Tumor Suppressor Proteins. Accounts of Chemical Research, 43, 271-279, 2010. (Look here)


17. Ano Bom, A. P. D.; Freitas, M. S.; Moreira, F. S.; Ferraz, D.; Sanches, D.; Gomes, A. M. O.; Valente, A. P.; CORDEIRO, Y.; Silva, J. L. The p53 Core Domain Is a Molten Globule at Low pH: FUNCTIONAL IMPLICATIONS OF A PARTIALLY UNFOLDED STRUCTURE. The Journal of Biological Chemistry, 285, 2857-2866, 2010. (Look here)

18. Macedo, Bruno; Kaschula, Catherine H.; Hunter, Roger; Chaves, Juliana A.P.; van der Merwe, Johannes D.; Silva, Jerson L.; Egan, Timothy J.; Cordeiro, Yraima. Synthesis and anti-prion activity evaluation of aminoquinoline analogues. European Journal of Medicinal Chemistry, v45, 5468-5473, 2010. (Look here)


19. Marques, Adriana F.; Cordeiro, Yraima; Silva, Jerson L.; Lima, Luis Mauricio T.R. Enhanced prion protein stability coupled to DNA recognition and milieu acidification. Biophysical Chemistry, 141, 135-139, 2009. (Look here)


20. ISHIMARU, D.; Ano Bom A. P. D; Lima, L. M. T. R.; QUESADO, P. A.; Oyama, M. F. C.; GALLO, C. V. M.; CORDEIRO, Y.; Silva, J. L. Cognate DNA Stabilizes the Tumor Suppressor p53 and Prevents Misfolding and Aggregation. Biochemistry, 48, 6126-6135, 2009. (Look here)


21. ROMANO, S. A.; Cordeiro, Y.; Lima, L. M. T. R.; LOPES, M. H.; Silva, J. L.; Foguel, D.; Linden, R. Reciprocal remodeling upon binding of the prion protein to its signaling partner hop/STI1. The FASEB Journal, 23, 4308-4316, 2009. (Look here)


22. Silva, J. L.; Lima, L. M. T. R.; Foguel, D.; CORDEIRO, Y. The intriguing nucleic acid-binding features of the mammalian prion protein. Trends in Biochemical Sciences, 33, 132-140, 2008. (Look here)


23. Gomes, M. P. B.; MILLEN, T. A.; Ferreira P. S.; CUNHA-E-SILVA, N. L.; Vieira, T. C. R. G.; Almeida, M. S.; Silva, J. L.; CORDEIRO, Y. Prion protein complexed to N2a cellular RNAs through its N-terminal domain forms aggregates and is toxic to murine neuroblastoma cells. The Journal of Biological Chemistry, 283, 19616-19625, 2008. (Look here)


24. Gomes, Mariana P. B.; Cordeiro, Yraima; Silva, Jerson L. The peculiar interaction between mammalian prion protein and RNA. PRION, 2, 64-66, 2008. (Look here)


25. Silva, J. L.; CORDEIRO, Y.; Foguel, D. Protein Folding and Aggregation: Two sides of the same coin in the condensation of proteins revealed by pressure studies. BBA. Proteins and Proteomics, 1764, 443-451, 2006. (Look here)


26. CORDEIRO, Y.; KRAINEVA, J.; SUAREZ, M. C.; TEMPESTA, A. G.; KELLY, J. W.; Silva, J. L.; WINTER, R.; Foguel, D. FT-IR spectroscopy provides a fingerprint for the tetramer and for the aggregates of transthyretin. Biophysical Journal, 91, 957-967, 2006. (Look here)


27. Lima, L. M. T. R.; CORDEIRO, Y.; Tinoco, L. W.; MARQUES, A. F.; Oliveira, C. L. P.; SAMPATH, S.; Foguel, D.; Torriani, I.; CAUGHEY, B.; Silva, J. L. Structural insights into the interaction between prion protein and nucleic acid. Biochemistry, 45, 9180-9187, 2006. (Look here)


28. CORDEIRO, Y.; Silva, J. L. The Hypothesis of the Catalytic Action of Nucleic Acid on the Conversion of Prion Protein. Protein and Peptide Letters, 12, 251-255, 2005. (Look here)


29. Cordeiro, Y.; KRAINEVA, J.; WINTER, R.; Silva, J.L. Volume and energy folding landscape of prion protein revealed by pressure. Brazilian Journal of Medical and Biological Research, 38, 1195-1201, 2005. (Look here)


30. CORDEIRO, Y.; KRAINEVA, J.; Gomes, M. P. B.; LOPES, M. H.; Martins, V. R.; Lima, L. M. T. R.; Foguel, D.; WINTER, R.; Silva, J. L. The amino-terminal PrP domain is crucial to modulate prion misfolding and aggregation. Biophysical Journal, 89, 2667-2676, 2005. (Look here)


31. CORDEIRO, Y.; KRAINEVA, J.; RAVINDRA, R.; Lima, L. M. T. R.; Gomes, M. P. B.; Foguel, D.; WINTER, R.; Silva, J. L. Hydration and packing effects on prion folding and beta-sheet conversion: High-pressure spectroscopy and pressure perturbation calorimetry studies. The Journal of Biological Chemistry, 279, 32354-32359, 2004. (Look here)


32. ISHIMARU, D.; ANDRADE, L. R.; TEIXEIRA, L. S. P.; QUESADO, P. A.; MAIOLINO, L. M.; LOPEZ, P. M.; CORDEIRO, Y.; COSTA, L. T.; Heckl, W. M.; WEISSMUELLER, G. Fibrillar aggregates of the tumor suppressor p53 core domain. Biochemistry, 42, 9022-9027, 2003. (Look here)


33. Cordeiro, Y.; Lima, L. M. T. R.; Gomes, M. P. B.; Foguel, D.; Silva, J. L. Modulation of Prion Protein Oligomerization, Aggregation, and -sheet Conversion by 4,4'-Dianilino-1,1'-binaphthyl-5,5'-sulfonate (bis-ANS). Journal of Biological Chemistry, 279, 5346-5352, 2004. (Look here)


34. Cordeiro, Y.; Machado, F.; Juliano, L.; Juliano, M. A.; Brentani, R. R.; Foguel, D.; Silva, J. L. DNA Converts Cellular Prion Protein into the beta-Sheet Conformation and Inhibits Prion Peptide Aggregation. The Journal of Biological Chemistry, 276, 49400-49409, 2001. (Look here)


Faculdade de Farmácia, UFRJ

CCS, Bloco B, subsolo, sala 17

Ilha do Fundão, Rio de Janeiro

RJ • 21941-902 • Brazil

Phone: +55 (21) 2260-9192 | Extension 210


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