Abstract
We report the solution behavior, oligomerization state, and structural details of myotoxin-II purified from the venom of Bothrops asper in the presence and absence of sodium dodecyl sulfate (SDS) and multiple lipids, as examined by analytical ultracentrifugation and nuclear magnetic resonance. Molecular functional and structural details of the myotoxic mechanism of group II Lys-49 phospholipase A2 homologues have been only partially elucidated so far, and conflicting observations have been reported in the literature regarding the monomeric vs. oligomeric state of these toxins in solution. We observed the formation of a stable and discrete, hexameric form of myotoxin-II, but only in the presence of small amounts of SDS. In SDS-free medium, myotoxin-II was insensitive to mass action and remained monomeric at all concentrations examined (up to 3 mg/ml, 218.2 μM). At SDS concentrations above the critical micelle concentration, only dimers and trimers were observed, and at intermediate SDS concentrations, aggregates larger than hexamers were observed. We found that the amount of SDS required to form a stable hexamer varies with protein concentration, suggesting the need for a precise stoichiometry of free SDS molecules. The discovery of a stable hexameric species in the presence of a phospholipid mimetic suggests a possible physiological role for this oligomeric form, and may shed light on the poorly understood membrane-disrupting mechanism of this myotoxic protein class.









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The UltraScan software used to analyze the AUC data is open source and freely available from the Github repository (https://github.com/ehb54/ultrascan3). The AUC data are available in openAUC format upon request from the authors, and is stored in the UltraScan LIMS server at the Canadian Center for Hydrodynamics.
References
AlResaini S, Malik A, Alonazi M, Alhomida A, Khan JM (2023) SDS induces amorphous, amyloid-fibril, and alpha-helical structures in the myoglobin in a concentration-dependent manner. Int J Biol Macromol 231:123237. https://doi.org/10.1016/j.ijbiomac.2023.123237
Ando S, Harris RK, Hazendonk P, Wormald PW (2005) Selective NMR pulse sequences for the study of solid H-containing fluoropolymers. Macromol Rapid Commun 26:345–356
Arni RK, Gutiérrez JM (1993) Crystallization and preliminary diffraction data of two myotoxins isolated from the venoms of Bothrops asper (Terciopelo) and Bothrops nummifer (jumping viper). Toxicon 31(8):1061–1064. https://doi.org/10.1016/0041-0101(93)90264-j. (PMID: 8212044)
Arni RK, Ward RJ, Gutiérrez JM, Tulinsky A (1995) Structure of a calcium-independent phospholipase-like myotoxic protein from Bothrops asper venom. Acta Cryst D 51:311–317
Avhelj F, Kocjan D, Baldwin RL (2004) Protein chemical shifts from α-helices and β-sheets depends on solvent exposure. PNAS 101:17394–17397
Brookes E, Demeler B (2008) Parallel computational techniques for the analysis of sedimentation velocity experiments in UltraScan. Colloid Polym Sci 286:138–148
Brookes E, Rocco M (2018) Recent advances in the UltraScan SOlution MOdeller (US-SOMO) hydrodynamic and small-angle scattering data analysis and simulation suite. Eur Biophys J 47:855–864. https://doi.org/10.1007/s00249-018-1296-0
Brookes EH, Cao W, Demeler B (2010a) A two-dimensional spectrum analysis for sedimentation velocity experiments of mixtures with heterogeneity in molecular weight and shape. Eur Biophys J 39:405–414
Brookes E, Demeler B, Rocco M (2010b) Developments in the US-SOMO bead modeling suite: new features in the direct residue-to-bead method, improved grid routines, and influence of accessible surface area screening. Macromol Biosci 10(7):746–753. https://doi.org/10.1002/mabi.200900474. (PMID: 20480513)
Brookes, EH and Demeler, B (2007) Parsimonious regularization using genetic algorithms applied to the analysis of analytical ultracentrifugation experiments. GECCO Proceedings ACM. 978-1-59593–697-4/07/0007
Brookes EH, Boppana RV, Demeler B. 2006 Computing large sparse multivariate optimization problems with an application in biophysics. Supercomputing '06 ACM. 0-7695-2700-0/06
Cavanagh J, Fairbrother WF, Palmer AG III, Rance M, Skelton NS (2007) Protein NMR spectroscopy, 2nd edn. Academic Press, Amsterdam, NL
Chaudhary P, Shank RA, Montina TA, Goettel JT, Foroud NA, Hazendonk P, Eudes F (2011) Hydrogen-bonding interactions in T-2 toxin studied using solution and solid-state NMR. Toxins 3:1310
Cifuentes A, Bernal JL, Diez-Masa JC (1997) Determination of critical micelle concentration values using capillary electrophoresis instrumentation. Anal Chem 69:4271–4274
Demeler B (2010) Methods for the design and analysis of sedimentation velocity and sedimentation equilibrium experiments with proteins. Curr Protoc Prot Sci. https://doi.org/10.1002/0471140864.ps0713s60
Demeler B, Brookes EH (2008) Monte Carlo analysis of sedimentation experiments. Colloid Polym Sci 286:129–137
Demeler B, Gorbet G (2016) Analytical ultracentrifugation data analysis with ultraScan-III. In: Uchiyama S, Stafford WF, Laue T (eds) Analytical ultracentrifugation: instrumentation, software, and applications. Springer, Berlin, pp 119–143
Demeler B, van Holde KE (2004) Sedimentation velocity analysis of highly heterogeneous systems. Anal Biochem 335(2):279–288
Demeler B, Brookes EH, Gorbet GE, Savelyev A, Zollars D, Dubbs B. 2022 UltraScan data analysis software for analytical ultracentrifugation experiments and hydrodynamic modelling. https://github.com/ehb54/ultrascan3
Fernandes CA, Borges RJ, Lomonte B, Fontes MR (2014) A structure-based proposal for a comprehensive myotoxic mechanism of phospholipase A 2-like proteins from viperid snake venoms. Biochim Biophys Acta 1844:2265–2276
Francis B, Gutierrez JM, Lomonte B, Kaiser II (1991) myotoxin II from Bothrops asper (Terciopelo) venom is a lysine-49 phospholipase A2. Arch Biochem Biophys 284(2):352–359. https://doi.org/10.1016/0003-9861(91)90307-5. (PMID: 1899180)
Hazendonk P, Harris RK, Ando S, Avalle P (2003) The DIVAM sequence: selective excitation of signals from rigid domains in a fluoropolymer. J Magn Reson 162:206–216
Hwang TL, Shaka AJ (1995) Water suppression that works excitation sculpting using arbitrary wave-forms and pulsed-field gradients. J Magn Reson Series A 112:275–279
Ismael MA, Khan JM, Malik A, Alsenaidy MA, Hidayathulla S, Khan RH, Sen P, Irfan M, Alsenaidy AM (2018) Unraveling the molecular mechanism of the effects of sodium dodecyl sulfate, salts, and sugars on amyloid fibril formation in camel IgG. Colloids Surf B Biointerfaces 1(170):430–437. https://doi.org/10.1016/j.colsurfb.2018.06.035
Khan JM, Sharma P, Arora K, Kishor N, Kaila P, Guptasarma P (2016) The Achilles’ heel of “ultrastable” hyperthermophile proteins: submillimolar concentrations of SDS stimulate rapid conformational change, aggregation, and amyloid formation in proteins carrying overall positive charge. Biochemistry 55(28):3920–3936. https://doi.org/10.1021/acs.biochem.5b01343. (Epub 2016 Jul 6 PMID: 27331826)
Khan JM, Malik A, Ahmed MZ, Ahmed A (2022) SDS modulates amyloid fibril formation and conformational change in succinyl-ConA at low pH. Spectrochim Acta A Mol Biomol Spectrosc 267(Pt 1):120494. https://doi.org/10.1016/j.saa.2021.120494. (Epub 2021 Oct 13 PMID: 34689006)
Lomonte B (2023) Lys49 myotoxins, secreted phospholipase A2-like proteins of viperid venoms: A comprehensive review. Toxicon 224:107024. https://doi.org/10.1016/j.toxicon.2023.107024
Lomonte B, Fernández J (2022) Solving the microheterogeneity of Bothrops asper myotoxin-II by high-resolution mass spectrometry: Insights into C-terminal region variability in Lys49-phospholipase A2 homologs. Toxicon 210:123–131. https://doi.org/10.1016/j.toxicon.2022.02.024. (Epub 2022)
Lomonte B, Gutiérrez JM (1989) A new muscle damaging toxin, myotoxin II, from the venom of the snake Bothrops asper (terciopelo). Toxicon 27:725–733
Lomonte B, Rangel J (2012) Snake venom Lys49 myotoxins: from phospholipases A2 to non-enzymatic membrane disruptors. Toxicon 60:520–530. https://doi.org/10.1016/j.toxicon.2012.02.007
Lomonte B, Moreno E, Tarkowski A, Hanson LÅ, Maccarana M (1994) Neutralizing interaction between heparins and myotoxin II, a Lys-49 phospholipase A2 from Bothrops asper snake venom. Identification of a heparin-binding and cytolytic toxin region by the use of synthetic peptides and molecular modeling. J Biol Chem 269:29867–29873
Matsui T, Kamata S, Ishii K, Maruno T, Ghanem N, Uchiyama S, Kato K, Suzuki A, Oda-Ueda N, Ogawa T, Tanaka Y (2019) SDS-induced oligomerization of Lys49-phospholipase A2 from snake venom. Sci Rep 9(1):2330. https://doi.org/10.1038/s41598-019-38861-8. (PMID:30787342;PMCID:PMC6382788)
Mora-Obando D, Díaz C, Angulo Y, Gutiérrez JM, Lomonte B (2014a) Role of enzymatic activity in muscle damage and cytotoxicity induced by Bothrops asper Asp49 phospholipase A2 myotoxins: are there additional effector mechanisms involved? Peer J 2:e569. https://doi.org/10.7717/peerj.569
Mukerjee P (1962) The partial specific volume and the density of micelles of association colloidal electrolytes. J Phys Chem 66(9):1733–1735
Murakami MT, Arruda EZ, Melo PA, Martinez AB, Calil-Elias S, Tomaz MA, Lomonte B, Gutiérrez JM, Arni RK (2005) Inhibition of myotoxic activity of Bothrops asper myotoxin II by the anti-trypanosomal drug surarnin. J Mol Biol 350:416–426
Parker W, Song PS (1992) Protein structures in SDS micelle-protein complexes. Biophys J 61(5):1435–1439. https://doi.org/10.1016/S0006-3495(92)81949-5
Rule GS, Hitchens TK (2006) Fundamentals of protein NMR spectroscopy. Springer, Dordrecht, NL
Schmidt-Rohr K, Spies HW (1996) Multinuclear solid-state NMR and polymers. Academic Press, London
Shank RA, Foroud NA, Hazendonk P, Eudes F, Blackwell BA (2011) Current and future experimental strategies for structural analysis of trichothecene mycotoxins—A prospectus. Toxins 3:1518
Silverstein RM, Webster FX, Kiemle DJ (2005) Spectrometric identification of organic compounds, 7th edn. Wiley, Hoboken NJ
Vold RL, Waugh JS, Klein MP, Phelps DE (1968) Measurement of spin relaxation in complex systems. J Chem Phys 48:3831–3832
Wu D, Chen A, Johnson CS Jr (1995) Flow imaging by means of 1D pulsed-field-gradient NMR with application to electroosmotic flow. J Magn Reson A 115:123
Zhao J, Fung BM (1993) NMR study of the transformation of sodium dodecyl sulfate micelles. Langmuir 9:1228–1231
Acknowledgements
We thank Dr. Sebastien Poget (City University of New York) and Dr. Bruce Bowler (University of Montana) for providing lipids and detergents used in the analytical ultracentrifugation experiments. This work was supported by the Canada 150 Research Chairs program (C150-2017-00015, BD), the Canada Foundation for Innovation (CFI-37589, BD), the National Institutes of Health (1R01GM120600, BD) and the Canadian Natural Science and Engineering Research Council (DG-RGPIN-2019-05637, BD). UltraScan supercomputer calculations were supported through NSF/XSEDE grant TG-MCB070039N (BD), and University of Texas grant TG457201 (BD). The Canadian Natural Science and Engineering Research Council supports AH through a scholarship grant.
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Henrickson, A., Montina, T., Hazendonk, P. et al. SDS-induced hexameric oligomerization of myotoxin-II from Bothrops asper assessed by sedimentation velocity and nuclear magnetic resonance. Eur Biophys J 52, 445–457 (2023). https://doi.org/10.1007/s00249-023-01658-9
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DOI: https://doi.org/10.1007/s00249-023-01658-9


