Biomedical Chemistry: Research and Methods 2024, 7(2), e00220

Comparative SPR Analysis of Intermolecular Interactions Performed Using the Original Biacore CM5 CHIP and its Analog CMD500M

O.V. Gnedenko*, P.V. Ershov, Y.V. Mezentsev, L.A. Kaluzhskiy, E.O. Yablokov,
A.A. Gilep, A.S. Ivanov

Institute of Biomedical Chemistry, Pogodinskaya str., 10, Moscow 119121, Russia; *e-mail: gnedenko.oksana@gmail.com

Keywords:surface plasmon resonance (SPR); carboxymethylated dextran; antigen-antibody interaction; kinetic constants (kon, koff); equilibrium dissociation constant (Kd); CM5 chips and their analogues CMD500M

DOI:10.18097/BMCRM00220

The whole version of this paper is available in Russian.

Currently, users of Biacore SPR biosensors (“Cytiva”, USA) are faced with sanctions restrictions on the purchase of consumables (primarily optical chips) for this type of equipments. In this regard, the use of commercially available analogues of the optical chips has become relevant. In this work, a comparative study of molecular interactions was performed on a Biacore X100 SPR biosensor using an original Biacore CM5 optical chip (“Cytiva”, USA) and its analogue CMD500M (“XanTec bioanalytics GmbH”, Germany). Protein A was immobilized on both chips as a molecular ligand, often used in scientific research and biotechnological works to immobilize antibodies on various carriers (biosensor chips, sorbents, nano- and microparticles). An IgG antibody was used as a protein analyte. A comparative study of the interaction of various concentrations of antibodies with protein A immobilized on two versions of the chips was carried out. The values of the kinetic rate constants for the association (kon) and dissoсiation (koff) of complexes, as well as the equilibrium dissociation constant (Kd), were calculated from the obtained sensorgrams using the interaction model 1:1 (Langmuir) binding. The results of comparative measurements showed similar values of the rate constants and interaction affinities. The differences between the values of kon, koff and Kd were 18%, 10% and 9%, respectively. Thus, this study confirmed the interchangeability of the original SPR chips CM5 and their analogues CMD500M.
Figure 1. Sensograms of pH-scouting of protein A on CM5 (A) and CMD500M (B) chips.
Figure 2. Sensograms of protein A immobilization on CM5 (A) and CMD500M (B) chips. Arrows mark the beginning and end of injections of EDC/NHS (1), protein A (2), ethanolamine-HCl (3). Im is the amount of immobilized protein.
Figure 3. Sensograms of the interaction of IgG2a with immobilized protein A on CM5 (A) and CMD500M (B) chips in the concentration range from 10 to 1000 nM: 1 -10 nM, 2 -25 nM, 3 - 50 nM, 4 - 100 nM, 5 -500 nM, 6 – 1000 nM.

CLOSE
Table 1. Protein-ligand (protein A) immobilization protocols performed in accordance with the manufacturer’s recommendations for the CM5 chip and for the CMD500M chip.

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Table 2. Kinetic parameters and equilibrium dissociation constant of complexes of IgG2a with immobilized protein A.

FUNDING

The work was carried out within the framework of the Program for Basic Research in the Russian Federation for a long-term period (2021–2030) (No. 122030100168-2).

REFERENCES

  1. Karlsson, R. (2004) SPR for molecular interaction analysis: a review of emerging application areas. Journal of molecular recognition: JMR, 17(3), 151–161. DOI
  2. Jason-Moller, L., Murphy, M., Bruno, J. (2006) Overview of Biacore systems and their applications. Current Protocols in Protein Science, Chapter 19, Unit 19.13. DOI
  3. Florinskaya, A., Ershov, P., Mezentsev, Y., Kaluzhskiy, L., Yablokov, E., Medvedev, A., Ivanov, A. (2018) SPR biosensors in direct molecular fishing: implications for protein interactomics. Sensors, 18(5), 1616. DOI
  4. Liu, H., Fu, Y., Yang, R., Guo, J., Guo, J. (2023) Surface plasmonic biosensors: principles, designs and applications. The Analyst, 148(24), 6146–6160. DOI
  5. Douzi, B. (2024) Surface plasmon resonance: a sensitive tool to study protein-protein interactions. Methods in Molecular Biology (Clifton, N.J.), 2715, 363–382. DOI
  6. Yablokov, E.O., Sushko, T.A., Ershov, P.V., Florinskaya, A.V., Gnedenko, O.V., Shkel, T.V., Grabovec, I.P., Strushkevich, N.V., Kaluzhskiy, L.A., Usanov, S.A., Gilep, A.A., Ivanov, A.S. (2019) A large-scale comparative analysis of affinity, thermodynamics and functional characteristics of interactions of twelve cytochrome P450 isoforms and their redox partners. Biochimie, 162, 156–166. DOI
  7. Ershov, P.V., Kaluzhskiy, L.A., Yablokov, E.O., Gnedenko, O.V., Kavaleuski, A.A., Tumilovich, A.M., Gilep, A.A., Strushkevich, N.V., Ivanov, A.S. (2021) Application of the SPR biosensor for the analysis of protein–protein interactions in aqueous environment and bilayer lipid membrane as exemplified by P450scc (CYP11A1). Biochemistry (Moscow), Supplement Series A: Membrane and Cell Biology, 15(1), 89–96. DOI
  8. Kaluzhskiy, L., Ershov, P., Yablokov, E., Shkel, T., Grabovec, I., Mezentsev, Y., Gnedenko, O., Usanov, S., Shabunya, P., Fatykhava, S., Popov, A., Artyukov, A., Styshova, O., Gilep, A., Strushkevich, N., Ivanov, A. (2021) Human lanosterol 14-alpha demethylase (CYP51A1) is a putative target for natural flavonoid luteolin 7,3′-disulfate. Molecules, 26(8), 2237. DOI
  9. Ershov, P.V., Yablokov, E., Zgoda, V., Mezentsev, Y., Gnedenko, O., Kaluzhskiy, L., Svirid, A., Gilep, A., Usanov, S.A., Ivanov, A. (2021) A new insight into subinteractomes of functional antagonists: Thromboxane (CYP5A1) and prostacyclin (CYP8A1) synthases. Cell Biology International, 45(6), 1175–1182. DOI
  10. Gilep, A., Varaksa, T., Bukhdruker, S., Kavaleuski, A., Ryzhykau ,Y., Smolskaya, S., Sushko, T., Tsumoto, K., Grabovec, I., Kapranov, I., Okhrimenko, I., Marin, E., Shevtsov, M., Mishin, A., Kovalev, K., Kuklin, A., Gordeliy, V., Kaluzhskiy, L., Gnedenko, O., Yablokov, E., Ivanov, A., Borshchevski,y V., Strushkevich, N. (2023) Structural insights into 3Fe–4S ferredoxins diversity in M. tuberculosis highlighted by a first redox complex with P450. Frontiers in Molecular Biosciences, 9, 1100032. DOI
  11. Shepherd, C., Robinson, S., Berizzi, A., Thompson, L.E J., Bird, L., Culurgioni, S., Varzandeh, S., Rawlins, P.B., Olsen, R.H.J., Navratilova, I.H. (2022) Surface plasmon resonance screening to identify active and selective adenosine receptor binding fragments. ACS medicinal chemistry letters, 13(7), 1172–1181. DOI
  12. Zhang, X., Sun, L., Meuser, M.E., Zalloum, W.A., Xu, S., Huang, T., Cherukupalli, S., Jiang, X., Ding, X., Tao, Y., Kang, D., De Clercq, E., Pannecouque, C., Dick, A., Cocklin, S., Liu, X., Zhan, P. (2021) Design, synthesis, and mechanism study of dimerized phenylalanine derivatives as novel HIV-1 capsid inhibitors. European Journal of Medicinal Chemistry, 226, 113848. DOI
  13. Wang, W., Thiemann, S., Chen, Q. (2022) Utility of SPR technology in biotherapeutic development: Qualification for intended use. Analytical Biochemistry, 654, 114804. DOI
  14. Matharu, Z., Bee, C., Schwarz, F., Chen, H., Tomlinson, M., Wu, G., Rakestraw, G., Hornsby, M., Drake, A., Strop, P., Rajpal, A., Dollinger, G. (2021) High-throughput surface plasmon resonance biosensors for identifying diverse therapeutic monoclonal antibodies. Analytical Chemistry, 93(49), 16474–16480. DOI
  15. Zhu, Z.-L., Qiu, X.-D., Wu, S., Liu, Y.-T., Zhao, T., Sun, Z.-H., Li, Z.-R., Shan, G.-Z. (2020) Blocking Effect of Demethylzeylasteral on the Interaction between Human ACE2 Protein and SARS-CoV-2 RBD Protein Discovered Using SPR Technology. Molecules (Basel, Switzerland), 26(1), 57. DOI
  16. Risse, F., Gedig, E.T., Gutmann, J.S. (2018) Carbodiimide-mediated immobilization of acidic biomolecules on reversed-charge zwitterionic sensor chip surfaces. Analytical and Bioanalytical Chemistry, 410(17), 4109–4122. DOI
  17. Brown, M.E., Bedinger, D., Lilov, A., Rathanaswami, P., Vásquez, M., Durand, S., Wallace-Moyer, I., Zhong, L., Nett J. H., Burnina, I., Caffry, I., Lynaugh, H., Sinclair, M., Sun, T., Bukowski, J., Xu, Y., Abdiche, Y. N. (2020) Assessing the binding properties of the anti-PD-1 antibody landscape using label-free biosensors. PloS One, 15(3), e0229206. DOI
  18. Chen, Q., Manzke, M., Hartmann, A., Büttner, M., Amann, K., Pauly, D., Wiesener, M., Skerka, C., Zipfel, P.F. (2016) Complement factor H-related 5-hybrid proteins anchor properdin and activate complement at self-surfaces. Journal of the American Society of Nephrology, 27(5), 1413–1425. DOI
  19. Fu, Z., Xu, Y., Cai, C. (2021) Ginsenoside Rg3 inhibits pulmonary fibrosis by preventing HIF-1α nuclear localisation. BMC Pulmonary Medicine, 21(1), 70. DOI
  20. Di Primo, C., Dausse, E., Toulmé, J.-J. (2011) Surface plasmon resonance investigation of RNA aptamer–RNA ligand interactions. In J. Goodchild (Ed.), Therapeutic Oligonucleotides (Vol. 764, pp. 279–300). Totowa, NJ: Humana Press. DOI
  21. Desmyter, A., Farenc, C., Mahony, J., Spinelli, S., Bebeacua, C., Blangy, S., Veesler, D., Van Sinderen, D., Cambillau, C. (2013) Viral infection modulation and neutralization by camelid nanobodies. Proceedings of the National Academy of Sciences, 110(15). DOI
  22. Rohlik, D. L., Patel, E., Gilbert, N.C., Offenbacher, A.R., Garcia, B.L. (2023) Investigating membrane-binding properties of lipoxygenases using surface plasmon resonance. Biochemical and Biophysical Research Communications, 670, 47–54. DOI
  23. XanTec. Comparison between sensor chips from XanTec and other manufacturers. Newsletter II. Retrieved March 28, 2024, from: https://www.xantec.com/material/pdf/comparison_between_sensorchips_from_xantec_and_other_manufacturers.pdf
  24. Steinicke, F., Oltmann-Norden, I., Wätzig, H. (2017) Long term kinetic measurements revealing precision and general performance of surface plasmon resonance biosensors. Analytical Biochemistry, 530, 94–103. DOI