{"id":{"repo_id":"york","oai_identifier":"oai:yorkspace.library.yorku.ca:10315/30070"},"canonical_url":"https://search.dev.ndltd.org/etd/york/oai:yorkspace.library.yorku.ca:10315/30070","repository":{"repo_id":"york","name":"York University","base_url":"https://yorkspace.library.yorku.ca/oai/request"},"display":{"title":"Binding Determinants of HIV-1 REV RNA to the Pokeweed Antiviral Protein","abstract":"The pokeweed antiviral protein (PAP) is an N-glycosidase that removes an adenine residue from the sarcin/ricin loop (SRL) of rRNA through a process called depurination. PAP has also been shown to depurinate the ORF of Rev RNA of HIV-1 in vivo without causing toxicity. The sequence and structure of Rev RNA that PAP interacts is identified and compared to the sarcin/ricin loop in order to describe the importance of RNA structure for PAP specificity. My results show that PAP binds to a short GGGAA sequence at the site of depurination of Rev RNA. Structural analysis reveals that the binding site is within a 15 nt hairpin pentaloop. The pentaloop contains a pseudo GNRA loop structure that swings G and A residues out of the hairpin, allowing PAP access to these purines for binding and depurination. These data provide new insight into the specificity of PAP to target an RNA.","abstract_html":"The pokeweed antiviral protein (PAP) is an N-glycosidase that removes an adenine residue from the sarcin/ricin loop (SRL) of rRNA through a process called depurination. PAP has also been shown to depurinate the ORF of Rev RNA of HIV-1 in vivo without causing toxicity. The sequence and structure of Rev RNA that PAP interacts is identified and compared to the sarcin/ricin loop in order to describe the importance of RNA structure for PAP specificity. My results show that PAP binds to a short GGGAA sequence at the site of depurination of Rev RNA. Structural analysis reveals that the binding site is within a 15 nt hairpin pentaloop. The pentaloop contains a pseudo GNRA loop structure that swings G and A residues out of the hairpin, allowing PAP access to these purines for binding and depurination. These data provide new insight into the specificity of PAP to target an RNA.","abstract_has_math":false,"creators":["Jobst, Kass Alvin"],"institution":null,"degree_name":null,"degree_level":null,"degree_discipline":null,"degree_department":null,"school":null,"contributors":[],"advisors":["Hudak, Katalin A."],"committee_chairs":[],"committee_members":[],"year":2015,"date_issued":"2015-08-28","date_published":"2015-08-28","updated_at":"2026-07-24T06:34:05Z","subjects":["Biochemistry","Molecular biology","Biology"],"languages":["en"],"rights":["Author owns copyright, except where explicitly noted. Please contact the author directly with licensing requests."],"rights_urls":[],"identifier_entries":[]},"links":{"outbound_url":"http://hdl.handle.net/10315/30070","outbound_label":"Handle","outbound_source":"dc:identifier.uri"},"metadata_groups":[{"id":"people","label":"People","entries":[{"key":"dc:contributor.advisor","label":"Advisor","values":["Hudak, Katalin A."]},{"key":"dc:creator","label":"Author","values":["Jobst, Kass Alvin"]}]},{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date.accessioned","label":"Dc Date Accessioned","values":["2015-08-28T15:35:58Z"]},{"key":"dc:date.available","label":"Dc Date Available","values":["2015-08-28T15:35:58Z"]},{"key":"dc:date.issued","label":"Date","values":["2015-08-28"]},{"key":"dc:type","label":"Dc Type","values":["Electronic Thesis or Dissertation"]}]},{"id":"subjects_keywords","label":"Subjects and Keywords","entries":[{"key":"dc:subject","label":"Dc Subject","values":["Biochemistry","Molecular biology","Biology"]}]},{"id":"language_rights","label":"Language and Rights","entries":[{"key":"dc:language.iso","label":"Language (ISO)","values":["en"]},{"key":"dc:rights","label":"Dc Rights","values":["Author owns copyright, except where explicitly noted. Please contact the author directly with licensing requests."]}]},{"id":"identifiers","label":"Identifiers","entries":[{"key":"dc:identifier.uri","label":"Identifier URI","values":["http://hdl.handle.net/10315/30070"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description.abstract","label":"Abstract","values":["The pokeweed antiviral protein (PAP) is an N-glycosidase that removes an adenine residue from the sarcin/ricin loop (SRL) of rRNA through a process called depurination. PAP has also been shown to depurinate the ORF of Rev RNA of HIV-1 in vivo without causing toxicity. The sequence and structure of Rev RNA that PAP interacts is identified and compared to the sarcin/ricin loop in order to describe the importance of RNA structure for PAP specificity. My results show that PAP binds to a short GGGAA sequence at the site of depurination of Rev RNA. Structural analysis reveals that the binding site is within a 15 nt hairpin pentaloop. The pentaloop contains a pseudo GNRA loop structure that swings G and A residues out of the hairpin, allowing PAP access to these purines for binding and depurination. These data provide new insight into the specificity of PAP to target an RNA."]},{"key":"dc:title","label":"Title","values":["Binding Determinants of HIV-1 REV RNA to the Pokeweed Antiviral Protein"]}]}],"canonical_facts":{"dc:contributor.advisor":["Hudak, Katalin A."],"dc:creator":["Jobst, Kass Alvin"],"dc:date.accessioned":["2015-08-28T15:35:58Z"],"dc:date.available":["2015-08-28T15:35:58Z"],"dc:date.issued":["2015-08-28"],"dc:description.abstract":["The pokeweed antiviral protein (PAP) is an N-glycosidase that removes an adenine residue from the sarcin/ricin loop (SRL) of rRNA through a process called depurination. PAP has also been shown to depurinate the ORF of Rev RNA of HIV-1 in vivo without causing toxicity. The sequence and structure of Rev RNA that PAP interacts is identified and compared to the sarcin/ricin loop in order to describe the importance of RNA structure for PAP specificity. My results show that PAP binds to a short GGGAA sequence at the site of depurination of Rev RNA. Structural analysis reveals that the binding site is within a 15 nt hairpin pentaloop. The pentaloop contains a pseudo GNRA loop structure that swings G and A residues out of the hairpin, allowing PAP access to these purines for binding and depurination. These data provide new insight into the specificity of PAP to target an RNA."],"dc:identifier.uri":["http://hdl.handle.net/10315/30070"],"dc:language.iso":["en"],"dc:rights":["Author owns copyright, except where explicitly noted. Please contact the author directly with licensing requests."],"dc:subject":["Biochemistry","Molecular biology","Biology"],"dc:title":["Binding Determinants of HIV-1 REV RNA to the Pokeweed Antiviral Protein"],"dc:type":["Electronic Thesis or Dissertation"]},"updated_at":"2026-07-24T06:34:05Z"}