The University of Queensland

PPTC7 antagonizes mitophagy by promoting BNIP3 and NIX degradation via SCFFBXL4

Nguyen-Dien, Giang Thanh, Townsend, Brendan, Kulkarni, Prajakta Gosavi, Kozul, Keri-Lyn, Ooi, Soo Siang, Eldershaw, Denaye N, Weeratunga, Saroja, Liu, Meihan, Jones, Mathew JK, Millard, S Sean, Ng, Dominic CH, Pagano, Michele, Bonfim-Melo, Alexis, Schneider, Tobias, Komander, David, Lazarou, Michael, Collins, Brett M and Pagan, Julia K (2024). PPTC7 antagonizes mitophagy by promoting BNIP3 and NIX degradation via SCFFBXL4. EMBO Reports. doi: 10.1038/s44319-024-00181-y

Interrogation and validation of the interactome of neuronal Munc18-interacting Mint proteins with AlphaFold2

Weeratunga, Saroja, Gormal, Rachel S., Liu, Meihan, Eldershaw, Denaye, Livingstone, Emma K., Malapaka, Anusha, Wallis, Tristan P., Bademosi, Adekunle T., Jiang, Anmin, Healy, Michael D., Meunier, Frederic A. and Collins, Brett M. (2024). Interrogation and validation of the interactome of neuronal Munc18-interacting Mint proteins with AlphaFold2. Journal of Biological Chemistry, 300 (1) 105541, 105541. doi: 10.1016/j.jbc.2023.105541

Discovery and structural characterization of novel nanobodies targeting the Cavin1 complex essential for forming caveola membrane vesicles

Gao, Ya, Tillu, Vikas A., Wu, Yeping, Rae, James, Hall, Thomas E., Chen, Kai-En, Weeratunga, Saroja, Guo, Qian, Parton, Robert G. and Collins, Brett M. (2023). Discovery and structural characterization of novel nanobodies targeting the Cavin1 complex essential for forming caveola membrane vesicles. Acta Crystallographica. Section A: Foundations and Advances, 79 (a2), C939-C939. doi: 10.1107/s2053273323086825

ESCPE-1 mediates retrograde endosomal sorting of the SARS-CoV-2 host factor Neuropilin-1

Simonetti, Boris, Daly, James L., Simón-Gracia, Lorena, Klein, Katja, Weeratunga, Saroja, Antón-Plágaro, Carlos, Tobi, Allan, Hodgson, Lorna, Lewis, Philip A., Heesom, Kate J., Shoemark, Deborah K., Davidson, Andrew D., Collins, Brett M., Teesalu, Tambet, Yamauchi, Yohei and Cullen, Peter J. (2022). ESCPE-1 mediates retrograde endosomal sorting of the SARS-CoV-2 host factor Neuropilin-1. Proceedings of the National Academy of Sciences, 119 (25) e2201980119, 1-11. doi: 10.1073/pnas.2201980119

Structural predictions of the SNX-RGS proteins suggest they belong to a new class of lipid transfer proteins

Paul, Blessy, Weeratunga, Saroja, Tillu, Vikas A., Hariri, Hanaa, Henne, W. Mike and Collins, Brett M. (2022). Structural predictions of the SNX-RGS proteins suggest they belong to a new class of lipid transfer proteins. Frontiers in Cell and Developmental Biology, 10 826688, 826688. doi: 10.3389/fcell.2022.826688

Community-wide experimental evaluation of the PROSS stability-design method

Peleg, Yoav, Vincentelli, Renaud, Collins, Brett M., Chen, Kai-En, Livingstone, Emma K., Weeratunga, Saroja, Leneva, Natalya, Guo, Qian, Remans, Kim, Perez, Kathryn, Bjerga, Gro E K, Larsen, Øivind, Vaněk, Ondřej, Skořepa, Ondřej, Jacquemin, Sophie, Poterszman, Arnaud, Kjær, Svend, Christodoulou, Evangelos, Albeck, Shira, Dym, Orly, Ainbinder, Elena, Unger, Tamar, Schuetz, Anja, Matthes, Susann, Bader, Michael, de Marco, Ario, Storici, Paola, Semrau, Marta S., Stolt-Bergner, Peggy ... Fleishman, Sarel J. (2021). Community-wide experimental evaluation of the PROSS stability-design method. Journal of Molecular Biology, 433 (13) 166964, 166964. doi: 10.1016/j.jmb.2021.166964

A novel dual Ca2+ sensor system regulates Ca2+-dependent neurotransmitter release

Li, Lei, Liu, Haowen, Krout, Mia, Richmond, Janet E., Wang, Yu, Bai, Jihong, Weeratunga, Saroja, Collins, Brett M., Ventimiglia, Donovan, Yu, Yi, Xia, Jingyao, Tang, Jing, Liu, Jie and Hu, Zhitao (2021). A novel dual Ca2+ sensor system regulates Ca2+-dependent neurotransmitter release. Journal of Cell Biology, 220 (4) e202008121, 1-24. doi: 10.1083/jcb.202008121

Recognising the signals for endosomal trafficking

Weeratunga, Saroja, Paul, Blessy and Collins, Brett M. (2020). Recognising the signals for endosomal trafficking. Current Opinion in Cell Biology, 65, 17-27. doi: 10.1016/j.ceb.2020.02.005

Caveolae control contractile tension for epithelia to eliminate tumor cells

Teo, Jessica L., Gomez, Guillermo A., Weeratunga, Saroja, Davies, Elizabeth M., Noordstra, Ivar, Budnar, Srikanth, Katsuno-Kambe, Hiroko, McGrath, Meagan J., Verma, Suzie, Tomatis, Vanesa, Acharya, Bipul R., Balasubramaniam, Lakshmi, Templin, Rachel M., McMahon, Kerrie-Ann, Lee, Yoke Seng, Ju, Robert J., Stebhens, Samantha J., Ladoux, Benoit, Mitchell, Christina A., Collins, Brett M., Parton, Robert G. and Yap, Alpha S. (2020). Caveolae control contractile tension for epithelia to eliminate tumor cells. Developmental Cell, 54 (1), 75-91.e7. doi: 10.1016/j.devcel.2020.05.002

Molecular identification of a BAR domain-containing coat complex for endosomal recycling of transmembrane proteins

Simonetti, Boris, Paul, Blessy, Chaudhari, Karina, Weeratunga, Saroja, Steinberg, Florian, Gorla, Madhavi, Heesom, Kate J., Bashaw, Greg J., Collins, Brett M. and Cullen, Peter J. (2019). Molecular identification of a BAR domain-containing coat complex for endosomal recycling of transmembrane proteins. Nature Cell Biology, 21 (10), 1219-1233. doi: 10.1038/s41556-019-0393-3

VAMP2 Binding to Munc18-1 Domain 3a Controls the Nanoscale Reorganization of the Plasma Membrane and Vesicle Interface During Vesicular Priming

Kasula, Ravikiran, Blum, Ailisa, Salla-Martret, Merce, Chai, Ye Jin, Jiang, Anmin, Wallis, Tristan P., Gormal, Rachel S., Brouillet, Julie Z., Padmanabhan, Pranesh, Weeratunga, Saroja K., Livingstone, Emma K., Mollazade, Mahdie, Joensuu, Merja, Martínez-Mármol, Ramón, Collins, Brett M. and Meunier, Frederic (2019). VAMP2 Binding to Munc18-1 Domain 3a Controls the Nanoscale Reorganization of the Plasma Membrane and Vesicle Interface During Vesicular Priming. SSRN Electronic Journal. doi: 10.2139/ssrn.3362260

Alpha-1 giardin is an annexin with highly unusual calcium-regulated mechanisms

Weeratunga, Saroja K., Osman, Asiah, Hu, Nien-Jen, Wang, Conan K., Mason, Lyndel, Svard, Staffan, Hope, Greg, Jones, Malcolm K. and Hofmann, Andreas (2012). Alpha-1 giardin is an annexin with highly unusual calcium-regulated mechanisms. Journal of Molecular Biology, 423 (2), 169-181. doi: 10.1016/j.jmb.2012.06.041

SDAR: a practical tool for graphical analysis of two-dimensional data

Weeratunga, Saroja, Hu, Nien-Jen, Simon, Anne and Hofmann, Andreas (2012). SDAR: a practical tool for graphical analysis of two-dimensional data. BMC Bioinformatics, 13 (1) 201. doi: 10.1186/1471-2105-13-201

SBAL: A practical tool to generate and edit structure-based amino acid sequence alignments

Wang, Conan K., Broder, Ursula, Weeratunga, Saroja K., Gasser, Robin B., Loukas, Alex and Hofmann, Andreas (2012). SBAL: A practical tool to generate and edit structure-based amino acid sequence alignments. Bioinformatics, 28 (7) bts035, 1026-1027. doi: 10.1093/bioinformatics/bts035

DMAN: a java tool for analysis of multi-well differential scanning fluorimetry experiments

Wang, Conan K., Weeratunga, Saroja K., Pacheco, Chris M. and Hofmann, Andreas (2011). DMAN: a java tool for analysis of multi-well differential scanning fluorimetry experiments. Bioinformatics, 28 (3) btr664, 439-440. doi: 10.1093/bioinformatics/btr664

Two distinct ferritin-like molecules in pseudomonas aeruginosa: the product of the bfrA gene is a bacterial ferritin (FtnA) and not a bacterioferritin (Bfr)

Yao, Huili, Jepkorir, Grace, Lovell, Scott, Nama, Pavithra V., Weeratunga, Saroja, Battaile, Kevin P. and Rivera, Mario (2011). Two distinct ferritin-like molecules in pseudomonas aeruginosa: the product of the bfrA gene is a bacterial ferritin (FtnA) and not a bacterioferritin (Bfr). Biochemistry, 50 (23), 5236-5248. doi: 10.1021/bi2004119

Structural studies of bacterioferritin B from Pseudomonas aeruginosa suggest a gating mechanism for iron uptake via the ferroxidase center

Weeratunga, Saroja K., Lovell, Scott, Yao, Huili, Battaile, Kevin P., Fischer, Christopher J., Gee, Casey E. and Rivera, Mario (2010). Structural studies of bacterioferritin B from Pseudomonas aeruginosa suggest a gating mechanism for iron uptake via the ferroxidase center. Biochemistry, 49 (6), 1160-1175. doi: 10.1021/bi9015204

Binding of Pseudomonas aeruginosa apobacterioferritin-associated ferredoxin to bacterioferritin B promotes heme mediation of electron delivery and mobilization of core mineral iron

Weeratunga, Saroja K., Gee, Casey E., Lovell, Scott, Zeng, Yuhong, Woodin, Carrie L. and Rivera, Mario (2009). Binding of Pseudomonas aeruginosa apobacterioferritin-associated ferredoxin to bacterioferritin B promotes heme mediation of electron delivery and mobilization of core mineral iron. Biochemistry, 48 (31), 7420-7431. doi: 10.1021/bi900561a

Biochemical and structural characterization of Pseudomonas aeruginosa Bfd and FPR: Ferredoxin NADP+ reductase and not ferredoxin is the redox partner of heme oxygenase under iron-starvation conditions

Wang, An, Zeng, Yuhong, Han, Huijong, Weeratunga, Saroja, Morgan, Bailey N., Moeanne-Loccoz, Pierre, Schoenbrunn, Ernst and Rivera, Mario (2007). Biochemical and structural characterization of Pseudomonas aeruginosa Bfd and FPR: Ferredoxin NADP+ reductase and not ferredoxin is the redox partner of heme oxygenase under iron-starvation conditions. Biochemistry, 46 (43), 12198-12211. doi: 10.1021/bi7013135

Characterisation of protein complexes essential to cellular trafficking

Livingstone, Emma, Whitten, Andrew, Weeratunga, Saroja, Martin, Jennifer and Collins, Brett (2018). Characterisation of protein complexes essential to cellular trafficking. 32nd Annual Symposium of the Protein Society, Boston, MA, 9-12 July 2018 . Hoboken, NJ, United States: Wiley-Blackwell.

Protein interactions in the utilization of bacterioferritin iron

Rivera, Mario, Weeratunga, Saroja and Lovell, Scott (2011). Protein interactions in the utilization of bacterioferritin iron. 241st ACS National Meeting & Exposition, Anaheim, CA, United States, 27-31 March 2011.