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Author ORCID Identifier
https://orcid.org/0000-0003-0989-0102
AccessType
Open Access Dissertation
Document Type
dissertation
Degree Name
Doctor of Philosophy (PhD)
Degree Program
Chemistry
Year Degree Awarded
2022
Month Degree Awarded
May
First Advisor
Jeanne A. Hardy
Second Advisor
Eric R. Strieter
Third Advisor
Richard W. Vachet
Fourth Advisor
Scott C. Garman
Subject Categories
Biochemistry | Biophysics | Molecular Biology | Structural Biology
Abstract
Caspases are cysteine aspartate proteases involved in various cellular pathways including apoptosis, inflammation, and neurodegeneration. Caspase-9 is classified as an initiator apoptotic caspase that is activated upon intrinsic stress. Caspase-9 is composed of two domains: an N- terminal CARD domain and a catalytic core domain. We have employed hydrogen deuterium exchange mass spectrometry (H/DX-MS) to determine the 1) dynamics of the full-length caspase- 9, 2) dynamic impacts on caspase-9 upon substrate-induced dimerization, and 3) regions involved in the CARD: catalytic core domains interactions. Upon intrinsic stress, caspase-9 activates executioners, procaspase-3 and -7 but not procaspase-6. We have employed site-directed mutagenesis technique and substrate-digestion assays to identify the factors (e.g., sequence and the local context of the cleavage sites) that facilitate caspase-9 to cleave the intersubunit linker (ISL) of procaspase-3 but not the ISL of procaspase-6. One prime question related to caspase-9 is – Is caspase-9 only an initiator of apoptosis, or it has any others proteolytic roles? We employed reverse N-terminomics on caspase-3 and -9, and identified 124 and 906 putative substrates, respectively. We also determined which substrates are proteolyzed upon staurosporine induced apoptosis using immunoblotting. Caspase-6, classified as an executioner of apoptosis, is involved in neurodegenerative pathways. Using a chemoproteomics study, an acyl phosphate ATP probe was shown to bind to procaspase-6 but not active caspase-6. By using site-directed mutagenesis and IC50 determination by SDS-PAGE assays, we found that 1) ATP attenuates auto-activation of procaspase-6 with an IC50 = 19 mM, and 2) dimer interface of procaspase-6 is a putative ATP-binding site.
DOI
https://doi.org/10.7275/28615334
Recommended Citation
Soni, Ishankumar V., "Investigating Structures and Functions of Apoptotic Caspases" (2022). Doctoral Dissertations. 2571.
https://doi.org/10.7275/28615334
https://scholarworks.umass.edu/dissertations_2/2571
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