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Bio-SAXS of single-stranded DNA-binding proteins: Radiation protection by the compatible solute ectoine

  • Small-angle X-ray scattering (SAXS) can be used for structural determination of biological macromolecules and polymers in their native states (e.g. liquid phase). This means that the structural changes of (bio-)polymers, such as proteins and DNA, can be monitored in situ to understand their sensitivity to changes in chemical environments. In an attempt to improve the reliability of such experiments, the reduction of radiation damage occurring from exposure to X-rays is required. One such method, is to use scavenger molecules to protect macromolecules against radicals produced during radiation exposure, such as reactive oxygen species (ROS). In this study we investigate the feasibility of applying the compatible solute, osmolyte and radiation protector Ectoine (THP(B)), as a scavenger molecule during SAXS measurements of the single-stranded DNA-binding protein Gene-V Protein (G5P/GVP). In this case, we monitor the radiation induced changes of G5P during bio-SAXS measurments and theSmall-angle X-ray scattering (SAXS) can be used for structural determination of biological macromolecules and polymers in their native states (e.g. liquid phase). This means that the structural changes of (bio-)polymers, such as proteins and DNA, can be monitored in situ to understand their sensitivity to changes in chemical environments. In an attempt to improve the reliability of such experiments, the reduction of radiation damage occurring from exposure to X-rays is required. One such method, is to use scavenger molecules to protect macromolecules against radicals produced during radiation exposure, such as reactive oxygen species (ROS). In this study we investigate the feasibility of applying the compatible solute, osmolyte and radiation protector Ectoine (THP(B)), as a scavenger molecule during SAXS measurements of the single-stranded DNA-binding protein Gene-V Protein (G5P/GVP). In this case, we monitor the radiation induced changes of G5P during bio-SAXS measurments and the resulting microscopic energy-damage relation was determined from microdosimetric calculations by Monte-Carlo based particle scattering simulations with TOPAS/Geant4 and a custom target-model. This resulted in a median-lethal energy deposit of pure G5P at 4 mg mL−1 of E1/2 = 7 ± 5 eV, whereas a threefold increase of energy-deposit was needed under the presence of Ectoine to reach the same level of damage. This indicates that Ectoine increases the possible exposure time before radiation-damage to G5P is observed. Furthermore, the dominant type of damage shifted from aggregation in pure solutions towards a fragmentation for solutions containing Ectoine as a cosolute. These results are interpreted in terms of indirect radiation damage by reactive secondary species, as well as post-irradiation effects, related to preferential-exclusion of the cosolute from the protein surface. Hence, Ectoine is shown to provide a non-disturbing way to improve structure-determination of proteins via bio-SAXS in future studies.zeige mehrzeige weniger

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Metadaten
Autor*innen:Dorothea C. HallierORCiD, Glen Jacob SmalesORCiD, H. SeitzORCiD, Marc Benjamin HahnORCiD
Dokumenttyp:Zeitschriftenartikel
Veröffentlichungsform:Verlagsliteratur
Sprache:Englisch
Titel des übergeordneten Werkes (Englisch):Physical chemistry chemical physics (PCCP)
Jahr der Erstveröffentlichung:2023
Organisationseinheit der BAM:6 Materialchemie
6 Materialchemie / 6.5 Synthese und Streuverfahren nanostrukturierter Materialien
6 Materialchemie / 6.6 Physik und chemische Analytik der Polymere
Veröffentlichende Institution:Bundesanstalt für Materialforschung und -prüfung (BAM)
Verlag:Royal Society of Chemistry
Verlagsort:Cambridge
Jahrgang/Band:25
Ausgabe/Heft:7
Erste Seite:5372
Letzte Seite:5382
DDC-Klassifikation:Naturwissenschaften und Mathematik / Chemie / Analytische Chemie
Technik, Medizin, angewandte Wissenschaften / Ingenieurwissenschaften / Ingenieurwissenschaften und zugeordnete Tätigkeiten
Technik, Medizin, angewandte Wissenschaften / Ingenieurwissenschaften / Sanitär- und Kommunaltechnik; Umwelttechnik
Freie Schlagwörter:Bio-SAXS; BioSAXS; Cosolute; DNA; Dosimetry; Ectoin; Ectoine; G5P; GVP; Geant4; Geant4-DNA; Ionizing radiation damage; LEE; McSAS3; Microdosimetry; Monte-Carlo simulations; OH Radical; OH radical scavenger; Particle scattering simulations; Protein; Protein unfolding; Radiation damage; Radical Scavenger; SAXS; Single-stranded DNA-binding proteins; Small-angle xray scattering; Topas; Topas-MC; Topas-nBio; X-ray scattering; ssDNA
Themenfelder/Aktivitätsfelder der BAM:Chemie und Prozesstechnik
Material
Material / Degradation von Werkstoffen
Material / Nano
Umwelt
Umwelt / Umwelt-Material-Interaktionen
DOI:10.1039/d2cp05053f
URN:urn:nbn:de:kobv:b43-568909
ISSN:1463-9076
ISSN:1463-9084
Zugehöriger Identifikator:https://opus4.kobv.de/opus4-bam/frontdoor/index/index/docId/56811
Zugehöriger Identifikator:https://opus4.kobv.de/opus4-bam/frontdoor/index/index/docId/57006
Verfügbarkeit des Dokuments:Datei für die Öffentlichkeit verfügbar ("Open Access")
Lizenz (Deutsch):License LogoCreative Commons - CC BY - Namensnennung 4.0 International
Datum der Freischaltung:25.01.2023
Referierte Publikation:Ja
Datum der Eintragung als referierte Publikation:25.01.2023
Paper des Monats:Ja
Schriftenreihen ohne Nummerierung:Wissenschaftliche Artikel der BAM
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