Sinisa Bjelic

Bjelic Lab

Research

We are interested in understanding molecular interactions in biology.

To our help we use a combined computational and experimental approach; we often start by applying molecular modelling to build proteins or small-molecules that in theory will interact with a target followed by biochemical validation.

For opportunities in the lab, research interests, etc. please visit our website

http://protein.technology

Teaching

I am involved in teaching mainly biochemistry on undergrad level, where I'm also the course responsible and examiner. We also supervise students on the undergrad and graduate levels mainly with projects that are carried out in our laboratory with focus on protein engineering.

Selected Publications
Wijma, H.J., Floor, R.J., Bjelic S., Marrink, S.J, Baker, D, and Janssen, D.B. (2015) Enantioselective enzymes by computational design and in silico screening, Angewandte Chemie, 127, 3797-801.

Liu, Y., Zhang, X., Tan, Y.L., Bhabha, G., Ekiert, D.C., Kipnis, Y., Bjelic, S., Baker, D., Kelly, J.W. (2014) De novo-designed enzymes as small-molecule-regulated fluorescence imaging tags and fluorescent reporters, Journal of American Chemical Society, 136, 13102-5.

Bjelic, S., Kipnis, Y., Wang, L., Pianowski, Z., Vorobiev, S., Su, M., Seetharaman, J., Xiao, R., Kornhaber, G., Hunt, J.F., Tong, L., Hilvert, D., and Baker, D. (2014) Exploration of alternate catalytic mechanisms and optimization strategies for retroaldolase design, Journal of Molecular Biology, 426, 256-71.

Bjelic, S., Nivon, L.G., Çelebi-Olçum, N., Kiss, G., Rosewall, C.F., Lovick, H.M., Ingalls, E.L., Gallaher, J.L., Seetharaman, J., Lew, S., Montelione, G.T., Hunt, J.F., Michael, F.E., Houk K.N., and Baker, D. (2013) Computational design of enone-binding proteins with catalytic activity for the Morita-Baylis-Hillman reaction, ACS Chemical Biology, 8, 749-57.

Publikationer

Artikel i tidskrift (Refereegranskat)

Sjöström, D.J., Grill, B., Ambrosetti, E., Veetil, A.A., Mohlin, C., et al. (2023). Affinity Maturated Transferrin Receptor Apical Domain Blocks Machupo Virus Glycoprotein Binding. Journal of Molecular Biology. 435 (20).
Status: Publicerad
Otsuka, F.A.M., Bjelic, S. (2022). Evaluation of residue variability in a conformation-specific context and during evolutionary sequence reconstruction narrows drug resistance selection in Abl1 tyrosine kinase. Protein Science. 31 (7).
Status: Publicerad
Sjöström, D.J., Mohlin, C., Ambrosetti, E., Garforth, S.J., Teixeira, A.I., et al. (2022). Motif-driven protein binder design towards transferrin receptor helical domain. The FEBS Journal. 289 (10). 2935-2947.
Status: Publicerad
Georgoulia, P.S., Bjelic, S. (2021). Prediction of Protein-Protein Binding Interactions in Dimeric Coiled Coils by Information Contained in Folding Energy Landscapes. International Journal of Molecular Sciences. 22 (3). 1-13.
Status: Publicerad
Sjöström, D.J., Lundgren, A., Garforth, S.J., Bjelic, S. (2021). Tuning the binding interface between Machupo virus glycoprotein and human transferrin receptor. Proteins : Structure, Function, and Bioinformatics. 89 (3). 311-321.
Status: Publicerad
Georgoulia, P.S., Bjelic, S., Friedman, R. (2020). Deciphering the molecular mechanism of FLT3 resistance mutations. The FEBS Journal. 287 (15). 3200-3220.
Status: Publicerad
Sjöström, D.J., Berger, S.A., Oberdorfer, G., Bjelic, S. (2020). Computational backbone design enables soluble engineering of transferrin receptor apical domain. Proteins : Structure, Function, and Bioinformatics. 88 (12). 1569-1577.
Status: Publicerad
Georgoulia, P.S., Todde, G., Bjelic, S., Friedman, R. (2019). The catalytic activity of Abl1 single and compound mutations : Implications for the mechanism of drug resistance mutations in chronic myeloid leukaemia. Biochimica et Biophysica Acta - General Subjects. 1863 (4). 732-741.
Status: Publicerad
Andre, I., Bjelic, S. (2018). Computational assessment of folding energy landscapes in heterodimeric coiled coils. Proteins : Structure, Function, and Bioinformatics. 86 (7). 790-801.
Status: Publicerad
Wijma, H.J., Floor, R.J., Bjelic, S., Marrink, S.J., Baker, D., et al. (2015). Enantioselective enzymes by computational design and in silico screening. Angewandte Chemie International Edition. 54 (12). 3726-3730.
Status: Publicerad
Liu, Y., Zhang, X., Tan, Y.L., Bhabha, G., Ekiert, D.C., et al. (2014). De Novo-Designed Enzymes as Small-Molecule-Regulated Fluorescence Imaging Tags and Fluorescent Reporters. Journal of the American Chemical Society. 136 (38). 13102-13105.
Status: Publicerad
Bjelic, S., Kipnis, Y., Wang, L., Pianowski, Z., Vorobiev, S., et al. (2014). Exploration of Alternate Catalytic Mechanisms and Optimization Strategies for Retroaldolase Design. Journal of Molecular Biology. 426 (1). 256-271.
Status: Publicerad
Liu, Y., Tan, Y.L., Zhang, X., Bhabha, G., Ekiert, D.C., et al. (2014). Small molecule probes to quantify the functional fraction of a specific protein in a cell with minimal folding equilibrium shifts.. Proceedings of the National Academy of Sciences of the United States of America. 111 (12). 4449-4454.
Status: Publicerad
Nivón, L.G., Bjelic, S., King, C., Baker, D. (2014). Automating human intuition for protein design. Proteins : Structure, Function, and Bioinformatics. 82 (5). 858-866.
Status: Publicerad
Bjelic, S., Nivón, L.G., Çelebi-Ölçüm, N., Kiss, G., Rosewall, C.F., et al. (2013). Computational design of enone-binding proteins with catalytic activity for the Morita-Baylis-Hillman reaction. ACS Chemical Biology. 8 (4). 749-757.
Status: Publicerad
Richter, F., Leaver-Fay, A., Khare, S.D., Bjelic, S., Baker, D. (2011). De novo enzyme design using Rosetta3. PLOS ONE. 6 (5).
Status: Publicerad
Bjelic, S., Brandsdal, B.O., Åqvist, J. (2008). Cold adaptation of enzyme reaction rates. Biochemistry. 47 (38). 10049-10057.
Status: Publicerad
Bjelic, S., Nervall, M., Gutiérrez-De-Terán, H., Ersmark, K., Hallberg, A., et al. (2007). Computational inhibitor design against malaria plasmepsins. Cellular and Molecular Life Sciences (CMLS). 64 (17). 2285-2305.
Status: Publicerad
Bjelic, S., Åqvist, J. (2006). Catalysis and linear free energy relationships in aspartic proteases. Biochemistry. 45 (25). 7709-7723.
Status: Publicerad
Ersmark, K., Feierberg, I., Bjelic, S., Hamelink, E., Hackett, F., et al. (2004). Potent inhibitors of the Plasmodium falciparum enzymes plasmepsin I and II devoid of cathepsin D inhibitory activity. Journal of Medicinal Chemistry. 47 (1). 110-122.
Status: Publicerad
Åqvist, J., Wennerström, P., Nervall, M., Bjelic, S., Brandsdal, B.O. (2004). Molecular dynamics simulations of water and biomolecules wit a Monte Carlo constant pressure algorithm. Chemical Physics Letters. 384 (4-6). 288-294.
Status: Publicerad
Bjelic, S., Aqvist, J. (2004). Computational prediction of structure, substrate binding mode, mechanism, and rate for a malaria protease with a novel type of active site.. Biochemistry. 43 (46). 14521-14528.
Status: Publicerad
Ersmark, K., Feierberg, I., Bjelic, S., Hultén, J., Samuelsson, B., et al. (2003). C2-symmetric inhibitors of Plasmodium falciparum plasmepsin II : synthesis and theoretical predictions. Bioorganic & Medicinal Chemistry. 11 (17). 3723-3733.
Status: Publicerad

Artikel, forskningsöversikt (Refereegranskat)

Friedman, R., Bjelic, S. (2020). Simulations Studies of Protein Kinases that are Molecular Targets in Cancer. Israel Journal of Chemistry. John Wiley & Sons. 60 (7). 667-680.
Status: Publicerad

Artikel i tidskrift (Övrigt vetenskapligt)

Bjelic, S. (2015). Protein carriers for passage of the Blood-Brain Barrier. Protein Science. 24. 177-177.
Status: Publicerad