Methods for sequence and structural analysis of B and T cell receptor repertoires

Authors: Teraguchi, Shunsuke, Saputri, Dianita S., Llamas-Covarrubias, Mara Anais, Davila, Ana, Diez, Diego, Nazlica, Sedat Aybars, Rozewicki, John, Ismanto, Hendra S., Wilamowski, Jan, Xie, Jiaqi, Xu, Zichang, Loza-Lopez, Martin de Jesus, van Eerden, Floris J., Li, Songling, Standley, Daron M.

Source: In Computational and Structural Biotechnology Journal 2020 18:2000-2011

Structural Modeling of Lymphocyte Receptors and Their Antigens

Authors: Li, Songling, Wilamowski, Jan, Teraguchi, Shunsuke, van Eerden, Floris J., Rozewicki, John, Davila, Ana, Xu, Zichang, Katoh, Kazutaka, Standley, Daron M.

Source: Methods in molecular biology. 2048:207-230

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCRN621345691&indx=1&recIds=ETOCRN621345691

Prediction of Thylakoid Lipid Binding Sites on Photosystem II

Authors: Van Eerden, Floris J., Melo, Manuel N., Frederix, Pim W.J.M., Marrink, Siewert J.

Source: In Biophysical Journal 19 December 2017 113(12):2669-2681

Design and Properties of Genetically Encoded Probes for Sensing Macromolecular Crowding

Authors: Liu, Boqun, Åberg, Christoffer, van Eerden, Floris J., Marrink, Siewert J., Poolman, Bert, Boersma, Arnold J.

Source: In Biophysical Journal 9 May 2017 112(9):1929-1939

Understanding Conformational Dynamics of Complex Lipid Mixtures Relevant to Biology

Authors: Friedman, Ran, Khalid, Syma, Aponte-Santamaría, Camilo, Arutyunova, Elena, Becker, Marlon, Boyd, Kevin J., Christensen, Mikkel, Coimbra, João T. S., Concilio, Simona, Daday, Csaba, van Eerden, Floris J., Fernandes, Pedro A., Gräter, Frauke, Hakobyan, Davit, Heuer, Andreas, Karathanou, Konstantina, Keller, Fabian, Lemieux, M. Joanne, Marrink, Siewert J., May, Eric R., Mazumdar, Antara, Naftalin, Richard, Pickholz, Mónica, Piotto, Stefano, Pohl, Peter, Quinn, Peter, Ramos, Maria J., Schiøtt, Birgit, Sengupta, Durba, Sessa, Lucia, Vanni, Stefano, Zeppelin, Talia, Zoni, Valeria, Bondar, Ana-Nicoleta, Domene, Carmen

Source: Journal of membrane biology. 251(5-6):609-631

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100125586801.0x000001&indx=1&recIds=ETOCvdc_100125586801.0x000001

Characterization of thylakoid lipid membranes from cyanobacteria and higher plants by molecular dynamics simulations

Authors: van Eerden, Floris J., de Jong, Djurre H., de Vries, Alex H., Wassenaar, Tsjerk A., Marrink, Siewert J.

Source: In BBA - Biomembranes June 2015 1848(6):1319-1330

When the TCR's engaged, the CD3 epsilons will play: A dynamic T cell receptor (TCR) triggering mechanism

Authors: van Eerden, Floris J., Alrahman Sherif, Aalaa, Llamas-Covarrubias, Mara Anais, Standley, Daron M.

Source: Biophysical journal. 122(S1):187a-187a

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100186043515.0x000001&indx=1&recIds=ETOCvdc_100186043515.0x000001

Enhancement of SARS-CoV-2 Infection via Crosslinking of Adjacent Spike Proteins by N-Terminal Domain-Targeting Antibodies.

Authors: Lusiany, Tina, Terada, Tohru, Kishikawa, Jun-ichi, Hirose, Mika, Chen, David Virya, Sugihara, Fuminori, Ismanto, Hendra Saputra, van Eerden, Floris J., Li, Songling, Kato, Takayuki, Arase, Hisashi, Yoshiharu, Matsuura, Okada, Masato, Standley, Daron M.

Source: Viruses (1999-4915); Dec2023, Vol. 15 Issue 12, p2421, 12p

Subject Terms: SARS-CoV-2, HYDROGEN-deuterium exchange, ANGIOTENSIN converting enzyme, MOLECULAR dynamics, PROTEINS, IMMUNOGLOBULINS

Celastrol suppresses humoral immune responses and autoimmunity by targeting the COMMD3/8 complex.

Authors: Shirai, Taiichiro, Nakai, Akiko, Ando, Emiko, Fujimoto, Jun, Leach, Sarah, Arimori, Takao, Higo, Daisuke, van Eerden, Floris J., Tulyeu, Janyerkye, Liu, Yu-Chen, Okuzaki, Daisuke, Murayama, Masanori A., Miyata, Haruhiko, Nunomura, Kazuto, Lin, Bangzhong, Tani, Akiyoshi, Kumanogoh, Atsushi, Ikawa, Masahito, Wing, James B., Standley, Daron M.

Source: Science Immunology; 2023, Vol. 8 Issue 81, p1-17, 17p

Flexible, Functional, and Familiar: Characteristics of SARS-CoV-2 Spike Protein Evolution.

Authors: Saputri, Dianita S., Li, Songling, van Eerden, Floris J., Rozewicki, John, Xu, Zichang, Ismanto, Hendra S., Davila, Ana, Teraguchi, Shunsuke, Katoh, Kazutaka, Standley, Daron M.

Source: Frontiers in Microbiology; 9/17/2020, Vol. 11, pN.PAG-N.PAG, 6p

Subject Terms: SARS-CoV-2, MOLECULAR evolution, PROTEINS, AMINO acids

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Simulation of Photosystem Ii Dynamics in the Thylakoid Membrane

Authors: van Eerden, Floris J., de Jong, Djurre H., Periole, Xavier, Marrink, Siewert-Jan

Source: In Biophysical Journal 28 January 2014 106(2) Supplement 1:181a-181a

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