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Gregry
Woss
Author
Department of Chemistry
College of Arts and Sciences
DEVELOPMENT OF A PEPTIDE BASED E3 LIGASE REPORTER
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
Spring 2017
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
Gregery
Woss
Author
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
Spring 2017
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable
of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system.
This was accomplished through the development of a novel class of peptide-based
fluorescent E3 ligase reporters which are intended to be analyzed by capillary
electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or
degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent
tag to facilitate detection by laser induced fluorescence (LIF). In order to identify
potent degrons, a library of E3 ligase reporters incorporating degrons from various
sources was synthesized. These reporters were characterized in cell lysates, then
optimized to produce substrates that would be efficiently ubiquitinated in cells. In
addition to working with minimal degron sequences, an expanded sub-library of reporters
based around the degron isolated from p53 was characterized in order to identify a compact
degron element and investigate its ubiquitination kinetics and specificity. In order to
circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters,
investigations were also carried out to develop novel degradation-resistant E3 ligase
reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that
was both peptidase-resistant and functioned as an E3 ligase reporter was identified.
Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide
reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was
observed by CE-LIF. This dissertation lays the groundwork for future development of next
generation peptide-based E3 ligase reporters.
Spring 2017
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide
Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting
institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
Spring 2017
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017-05
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
2017-05
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
2017-05
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Mathew
Lockett
Thesis advisor
text
2017-05
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
R. Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Matthew
Lockett
Thesis advisor
text
2017-05
University of North Carolina at Chapel Hill
Degree granting institution
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017
Analytical chemistry
Capillary Electrophoresis; E3 Ligase; Peptide; Peptide Reporters
eng
Doctor of Philosophy
Dissertation
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
R. Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Matthew
Lockett
Thesis advisor
text
2017-05
University of North Carolina at Chapel Hill
Degree granting institution
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017
Analytical chemistry
Capillary Electrophoresis, E3 Ligase, Peptide, Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Chemistry
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
R. Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Matthew
Lockett
Thesis advisor
text
2017-05
Gregery
Woss
Creator
Department of Chemistry
College of Arts and Sciences
Development of Peptide Based E3 Ligase Reporter
This dissertation describes the development of a new analytical tool capable of analyzing E3 ligase activity, a critical element in the ubiquitin proteasome system. This was accomplished through the development of a novel class of peptide-based fluorescent E3 ligase reporters which are intended to be analyzed by capillary electrophoresis (CE). These E3 ligase reporters incorporate a degradation signal, or degron, which is recognized and ubiquitinated by an E3 ligase, as well as a fluorescent tag to facilitate detection by laser induced fluorescence (LIF). In order to identify potent degrons, a library of E3 ligase reporters incorporating degrons from various sources was synthesized. These reporters were characterized in cell lysates, then optimized to produce substrates that would be efficiently ubiquitinated in cells. In addition to working with minimal degron sequences, an expanded sub-library of reporters based around the degron isolated from p53 was characterized in order to identify a compact degron element and investigate its ubiquitination kinetics and specificity. In order to circumvent peptidase-mediated degradation, a traditional weakness of peptide reporters, investigations were also carried out to develop novel degradation-resistant E3 ligase reporters incorporating β-hairpin secondary structures. Serendipitously, a β-hairpin that was both peptidase-resistant and functioned as an E3 ligase reporter was identified. Finally, electrophoretic separation conditions for the analysis of E3 ligase peptide reporters were identified, and ubiquitination of E3 ligase reporters in cell lysates was observed by CE-LIF. This dissertation lays the groundwork for future development of next generation peptide-based E3 ligase reporters.
2017
Analytical chemistry
Capillary Electrophoresis; E3 Ligase; Peptide; Peptide Reporters
eng
Doctor of Philosophy
Dissertation
University of North Carolina at Chapel Hill Graduate School
Degree granting institution
Nancy
Allbritton
Thesis advisor
James
Jorgenson
Thesis advisor
R. Mark
Wightman
Thesis advisor
Marcey
Waters
Thesis advisor
Matthew
Lockett
Thesis advisor
text
2017-05
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