Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1
Resumen:
Protein self-assembly is a common feature in biology and is often required for a myriad of fundamental processes, such as enzyme activity, signal transduction, and transport of solutes across membranes, among others. There are several techniques to find and assess homo-oligomer formation in proteins. Naturally, all these methods have their limitations, meaning that at least two or more different approaches are needed to characterize a case study. Herein, we present a new method to study protein associations using intrinsic fluorescence lifetime with phasors. In this case, the method is applied to determine the equilibrium dissociation constant (KD) of human peroxiredoxin 1 (hPrx1), an efficient cysteine-dependent peroxidase, that has a quaternary structure comprised of five head-to-tail homodimers non-covalently arranged in a decamer. The hPrx1 oligomeric state not only affects its activity but also its association with other proteins. The excited state lifetime of hPrx1 has distinct values at high and low concentrations, suggesting the presence of two different species. Phasor analysis of hPrx1 emission lifetime allowed for the identification and quantification of hPrx1 decamers, dimers, and their mixture at diverse protein concentrations. Using phasor algebra, we calculated the fraction of hPrx1 decamers at different concentrations and obtained KD (1.1 × 10−24 M4) and C0.5 (1.36 μM) values for the decamer–dimer equilibrium. The results were validated and compared with size exclusion chromatography. In addition, spectral phasors provided similar results despite the small differences in emission spectra as a function of hPrx1 concentration. The phasor approach was shown to be a highly sensitive and quantitative method to assess protein oligomerization and an attractive addition to the biophysicist’s toolkit.
2022 | |
CSIC: I+D 2020 ANII: FCE_1_2017_1_136043 ANII: FCE 2019_155969 |
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Peroxiredoxin 1 Protein oligomerization Lifetime phasors Spectral phasors Tryptophan fluorescence Dissociation constant |
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Inglés | |
Universidad de la República | |
COLIBRI | |
https://hdl.handle.net/20.500.12008/41338 | |
Acceso abierto | |
Licencia Creative Commons Atribución (CC - By 4.0) |
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author | Villar, Sebastián F. |
author2 | Dalla Rizza Aishemberg, Joaquín Möller, Matías N. Ferrer-Sueta, Gerardo Malacrida, Leonel Jameson, David M. Denicola, Ana |
author2_role | author author author author author author |
author_facet | Villar, Sebastián F. Dalla Rizza Aishemberg, Joaquín Möller, Matías N. Ferrer-Sueta, Gerardo Malacrida, Leonel Jameson, David M. Denicola, Ana |
author_role | author |
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bitstream.checksumAlgorithm.fl_str_mv | MD5 MD5 MD5 MD5 MD5 |
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collection | COLIBRI |
dc.contributor.filiacion.none.fl_str_mv | Villar Sebastián F., Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica. Dalla Rizza Aishemberg Joaquín, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica. Möller Matías N., Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica. Ferrer-Sueta Gerardo, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica. Malacrida Leonel, Instituto Pasteur (Montevideo). Jameson David M. Denicola Ana, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica. |
dc.creator.none.fl_str_mv | Villar, Sebastián F. Dalla Rizza Aishemberg, Joaquín Möller, Matías N. Ferrer-Sueta, Gerardo Malacrida, Leonel Jameson, David M. Denicola, Ana |
dc.date.accessioned.none.fl_str_mv | 2023-11-20T17:44:07Z |
dc.date.available.none.fl_str_mv | 2023-11-20T17:44:07Z |
dc.date.issued.none.fl_str_mv | 2022 |
dc.description.abstract.none.fl_txt_mv | Protein self-assembly is a common feature in biology and is often required for a myriad of fundamental processes, such as enzyme activity, signal transduction, and transport of solutes across membranes, among others. There are several techniques to find and assess homo-oligomer formation in proteins. Naturally, all these methods have their limitations, meaning that at least two or more different approaches are needed to characterize a case study. Herein, we present a new method to study protein associations using intrinsic fluorescence lifetime with phasors. In this case, the method is applied to determine the equilibrium dissociation constant (KD) of human peroxiredoxin 1 (hPrx1), an efficient cysteine-dependent peroxidase, that has a quaternary structure comprised of five head-to-tail homodimers non-covalently arranged in a decamer. The hPrx1 oligomeric state not only affects its activity but also its association with other proteins. The excited state lifetime of hPrx1 has distinct values at high and low concentrations, suggesting the presence of two different species. Phasor analysis of hPrx1 emission lifetime allowed for the identification and quantification of hPrx1 decamers, dimers, and their mixture at diverse protein concentrations. Using phasor algebra, we calculated the fraction of hPrx1 decamers at different concentrations and obtained KD (1.1 × 10−24 M4) and C0.5 (1.36 μM) values for the decamer–dimer equilibrium. The results were validated and compared with size exclusion chromatography. In addition, spectral phasors provided similar results despite the small differences in emission spectra as a function of hPrx1 concentration. The phasor approach was shown to be a highly sensitive and quantitative method to assess protein oligomerization and an attractive addition to the biophysicist’s toolkit. |
dc.description.sponsorship.none.fl_txt_mv | CSIC: I+D 2020 ANII: FCE_1_2017_1_136043 ANII: FCE 2019_155969 |
dc.format.extent.es.fl_str_mv | 14 h. |
dc.format.mimetype.es.fl_str_mv | application/pdf |
dc.identifier.citation.es.fl_str_mv | Villar, S, Dalla Rizza Aishemberg, J, Möller, M, [y otros autores]. "Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1". International Journal of Molecular Science. [en línea] 2022, 23: 5260. 14 h. DOI: 10.3390/ijms23095260 |
dc.identifier.doi.none.fl_str_mv | 10.3390/ijms23095260 |
dc.identifier.issn.none.fl_str_mv | 1422-0067 |
dc.identifier.uri.none.fl_str_mv | https://hdl.handle.net/20.500.12008/41338 |
dc.language.iso.none.fl_str_mv | en_US eng |
dc.publisher.es.fl_str_mv | MDPI |
dc.relation.ispartof.es.fl_str_mv | International Journal of Molecular Science, 2022, 23(9): 5260. |
dc.rights.license.none.fl_str_mv | Licencia Creative Commons Atribución (CC - By 4.0) |
dc.rights.none.fl_str_mv | info:eu-repo/semantics/openAccess |
dc.source.none.fl_str_mv | reponame:COLIBRI instname:Universidad de la República instacron:Universidad de la República |
dc.subject.es.fl_str_mv | Peroxiredoxin 1 Protein oligomerization Lifetime phasors Spectral phasors Tryptophan fluorescence Dissociation constant |
dc.title.none.fl_str_mv | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 |
dc.type.es.fl_str_mv | Artículo |
dc.type.none.fl_str_mv | info:eu-repo/semantics/article |
dc.type.version.none.fl_str_mv | info:eu-repo/semantics/publishedVersion |
description | Protein self-assembly is a common feature in biology and is often required for a myriad of fundamental processes, such as enzyme activity, signal transduction, and transport of solutes across membranes, among others. There are several techniques to find and assess homo-oligomer formation in proteins. Naturally, all these methods have their limitations, meaning that at least two or more different approaches are needed to characterize a case study. Herein, we present a new method to study protein associations using intrinsic fluorescence lifetime with phasors. In this case, the method is applied to determine the equilibrium dissociation constant (KD) of human peroxiredoxin 1 (hPrx1), an efficient cysteine-dependent peroxidase, that has a quaternary structure comprised of five head-to-tail homodimers non-covalently arranged in a decamer. The hPrx1 oligomeric state not only affects its activity but also its association with other proteins. The excited state lifetime of hPrx1 has distinct values at high and low concentrations, suggesting the presence of two different species. Phasor analysis of hPrx1 emission lifetime allowed for the identification and quantification of hPrx1 decamers, dimers, and their mixture at diverse protein concentrations. Using phasor algebra, we calculated the fraction of hPrx1 decamers at different concentrations and obtained KD (1.1 × 10−24 M4) and C0.5 (1.36 μM) values for the decamer–dimer equilibrium. The results were validated and compared with size exclusion chromatography. In addition, spectral phasors provided similar results despite the small differences in emission spectra as a function of hPrx1 concentration. The phasor approach was shown to be a highly sensitive and quantitative method to assess protein oligomerization and an attractive addition to the biophysicist’s toolkit. |
eu_rights_str_mv | openAccess |
format | article |
id | COLIBRI_fb4846348c8caaba16d1028c7284c382 |
identifier_str_mv | Villar, S, Dalla Rizza Aishemberg, J, Möller, M, [y otros autores]. "Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1". International Journal of Molecular Science. [en línea] 2022, 23: 5260. 14 h. DOI: 10.3390/ijms23095260 1422-0067 10.3390/ijms23095260 |
instacron_str | Universidad de la República |
institution | Universidad de la República |
instname_str | Universidad de la República |
language | eng |
language_invalid_str_mv | en_US |
network_acronym_str | COLIBRI |
network_name_str | COLIBRI |
oai_identifier_str | oai:colibri.udelar.edu.uy:20.500.12008/41338 |
publishDate | 2022 |
reponame_str | COLIBRI |
repository.mail.fl_str_mv | mabel.seroubian@seciu.edu.uy |
repository.name.fl_str_mv | COLIBRI - Universidad de la República |
repository_id_str | 4771 |
rights_invalid_str_mv | Licencia Creative Commons Atribución (CC - By 4.0) |
spelling | Villar Sebastián F., Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica.Dalla Rizza Aishemberg Joaquín, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica.Möller Matías N., Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica.Ferrer-Sueta Gerardo, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica.Malacrida Leonel, Instituto Pasteur (Montevideo).Jameson David M.Denicola Ana, Universidad de la República (Uruguay). Facultad de Ciencias. Instituto de Química Biológica.2023-11-20T17:44:07Z2023-11-20T17:44:07Z2022Villar, S, Dalla Rizza Aishemberg, J, Möller, M, [y otros autores]. "Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1". International Journal of Molecular Science. [en línea] 2022, 23: 5260. 14 h. DOI: 10.3390/ijms230952601422-0067https://hdl.handle.net/20.500.12008/4133810.3390/ijms23095260Protein self-assembly is a common feature in biology and is often required for a myriad of fundamental processes, such as enzyme activity, signal transduction, and transport of solutes across membranes, among others. There are several techniques to find and assess homo-oligomer formation in proteins. Naturally, all these methods have their limitations, meaning that at least two or more different approaches are needed to characterize a case study. Herein, we present a new method to study protein associations using intrinsic fluorescence lifetime with phasors. In this case, the method is applied to determine the equilibrium dissociation constant (KD) of human peroxiredoxin 1 (hPrx1), an efficient cysteine-dependent peroxidase, that has a quaternary structure comprised of five head-to-tail homodimers non-covalently arranged in a decamer. The hPrx1 oligomeric state not only affects its activity but also its association with other proteins. The excited state lifetime of hPrx1 has distinct values at high and low concentrations, suggesting the presence of two different species. Phasor analysis of hPrx1 emission lifetime allowed for the identification and quantification of hPrx1 decamers, dimers, and their mixture at diverse protein concentrations. Using phasor algebra, we calculated the fraction of hPrx1 decamers at different concentrations and obtained KD (1.1 × 10−24 M4) and C0.5 (1.36 μM) values for the decamer–dimer equilibrium. The results were validated and compared with size exclusion chromatography. In addition, spectral phasors provided similar results despite the small differences in emission spectra as a function of hPrx1 concentration. The phasor approach was shown to be a highly sensitive and quantitative method to assess protein oligomerization and an attractive addition to the biophysicist’s toolkit.Submitted by Farías Verónica (vfarias@fcien.edu.uy) on 2023-11-20T15:11:13Z No. of bitstreams: 2 license_rdf: 24251 bytes, checksum: 71ed42ef0a0b648670f707320be37b90 (MD5) 103390ijms23095260.pdf: 2712268 bytes, checksum: 450f0797e01fa7a4bb726e14c02ddf39 (MD5)Approved for entry into archive by Faget Cecilia (lfaget@fcien.edu.uy) on 2023-11-20T17:10:53Z (GMT) No. of bitstreams: 2 license_rdf: 24251 bytes, checksum: 71ed42ef0a0b648670f707320be37b90 (MD5) 103390ijms23095260.pdf: 2712268 bytes, checksum: 450f0797e01fa7a4bb726e14c02ddf39 (MD5)Made available in DSpace by Luna Fabiana (fabiana.luna@seciu.edu.uy) on 2023-11-20T17:44:07Z (GMT). No. of bitstreams: 2 license_rdf: 24251 bytes, checksum: 71ed42ef0a0b648670f707320be37b90 (MD5) 103390ijms23095260.pdf: 2712268 bytes, checksum: 450f0797e01fa7a4bb726e14c02ddf39 (MD5) Previous issue date: 2022CSIC: I+D 2020ANII: FCE_1_2017_1_136043ANII: FCE 2019_15596914 h.application/pdfen_USengMDPIInternational Journal of Molecular Science, 2022, 23(9): 5260.Las obras depositadas en el Repositorio se rigen por la Ordenanza de los Derechos de la Propiedad Intelectual de la Universidad de la República.(Res. Nº 91 de C.D.C. de 8/III/1994 – D.O. 7/IV/1994) y por la Ordenanza del Repositorio Abierto de la Universidad de la República (Res. Nº 16 de C.D.C. de 07/10/2014)info:eu-repo/semantics/openAccessLicencia Creative Commons Atribución (CC - By 4.0)Peroxiredoxin 1Protein oligomerizationLifetime phasorsSpectral phasorsTryptophan fluorescenceDissociation constantFluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1Artículoinfo:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionreponame:COLIBRIinstname:Universidad de la Repúblicainstacron:Universidad de la RepúblicaVillar, Sebastián F.Dalla Rizza Aishemberg, JoaquínMöller, Matías N.Ferrer-Sueta, GerardoMalacrida, LeonelJameson, David M.Denicola, AnaLICENSElicense.txtlicense.txttext/plain; charset=utf-84267http://localhost:8080/xmlui/bitstream/20.500.12008/41338/5/license.txt6429389a7df7277b72b7924fdc7d47a9MD55CC-LICENSElicense_urllicense_urltext/plain; charset=utf-844http://localhost:8080/xmlui/bitstream/20.500.12008/41338/2/license_urla0ebbeafb9d2ec7cbb19d7137ebc392cMD52license_textlicense_texttext/html; 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- Universidad de la Repúblicafalse |
spellingShingle | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 Villar, Sebastián F. Peroxiredoxin 1 Protein oligomerization Lifetime phasors Spectral phasors Tryptophan fluorescence Dissociation constant |
status_str | publishedVersion |
title | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 |
title_full | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 |
title_fullStr | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 |
title_full_unstemmed | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 |
title_short | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 |
title_sort | Fluorescence lifetime phasor analysis of the decamer–dimer equilibrium of human peroxiredoxin 1 |
topic | Peroxiredoxin 1 Protein oligomerization Lifetime phasors Spectral phasors Tryptophan fluorescence Dissociation constant |
url | https://hdl.handle.net/20.500.12008/41338 |