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Dissertations / Theses on the topic 'RNA-protein interactions'

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Published: 4 June 2021

Last updated: 25 July 2025

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1

Hahn, Daniela. "Brr2 RNA helicase and its protein and RNA interactions." Thesis, University of Edinburgh, 2011. http://hdl.handle.net/1842/5775.

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The dynamic rearrangements of RNA and protein complexes and the fidelity of pre-mRNA splicing are governed by DExD/H-box ATPases. One of the spliceosomal ATPases, Brr2, is believed to facilitate conformational rearrangements during spliceosome activation and disassembly. It features an unusual architecture, with two consecutive helicase-cassettes, each comprising a helicase and a Sec63 domain. Only the N-terminal cassette exhibits catalytic activity. By contrast, the C-terminal half of Brr2 engages in protein interactions. Amongst interacting proteins are the Prp2 and Prp16 helicases. The work

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2

Chandran, V. "Structural and functional characterisation of the protein-protein and protein-RNA interactions in the RNA degradosome." Thesis, University of Cambridge, 2006. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.597437.

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The C-terminal domain of RNase E is intrinsically unstructured, but small segments of 13 to 80 residues are predicted to have propensity for defined conformation and evidence presented here indicates that they function in nucleic acid binding and protein-protein interactions in the degradosome. Binding of two of these ordered regions to their predicted partners, enolase and PNPase, has been demonstrated using non-dissociating nano-flow mass spectrometry (MS). Binding of helicase to an arginine rich domain of RNase E (residues 628-843) has also been shown by MS and other approaches. The binding

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3

Batal, Rami. "RNA and protein interactions of the measles virus nucleocapsid protein." Thesis, McGill University, 1994. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=55437.

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We are interested in studying the RNA and protein binding activities of the measles virus (MV) NP. MV is one of the members of Paramyxoviridae, a family of non-segmented negative-stranded RNA viruses family. We have expressed the MV NP in procaryotic systems and by in vitro translation. We have created a number of carboxy-terminal deletions of NP to use in mapping the domains involved in RNA and protein binding. We have transcribed the 5$ sp prime$ end antigenome sequences (positive leader) in vitro. We have metabolically labeled viral and MV-infected cellular proteins. We have applied differe

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4

Xu, Deming. "RNA and protein interactions in the yeast spliceosome." Thesis, National Library of Canada = Bibliothèque nationale du Canada, 1998. http://www.collectionscanada.ca/obj/s4/f2/dsk1/tape10/PQDD_0005/NQ41534.pdf.

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5

Turner, David Richard. "Protein-RNA interactions in tobacco mosaic virus assembly." Thesis, University of Cambridge, 1987. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.328799.

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6

Singh, Jagjit. "RNA-Protein Interactions in the U12-Dependent Spliceosome." Cleveland State University / OhioLINK, 2016. http://rave.ohiolink.edu/etdc/view?acc_num=csu1484307043050366.

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7

Terribilini, Michael Joseph. "Computational analysis and prediction of protein-RNA interactions." [Ames, Iowa : Iowa State University], 2008.

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8

Peters, Daniel. "Structural and biochemical investigation of protein-RNA interactions." Thesis, University of York, 2014. http://etheses.whiterose.ac.uk/6784/.

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Non-coding RNAs (ncRNAs) are nucleic acids that do not code for protein. Rather, they have evolved highly specialised secondary structures and catalytic mechanisms that place them at the heart of regulating gene expression. The function of ncRNAs is often mediated or dependent on their interactions with RNA binding proteins. The study of both the structure and function of these proteins is crucial for understanding the biological role of the protein-RNA complexes. In this thesis, the structure and function of two RNA binding proteins: Lin28 and dihydrouridine synthase C (DusC) were investigate

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9

Ellis, Jonathan James. "Towards the prediction of protein-RNA interactions through protein structure analysis." Thesis, University of Sussex, 2008. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.444117.

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10

Ribeiro, Diogo. "Discovery of the role of protein-RNA interactions in protein multifunctionality and cellular complexity." Thesis, Aix-Marseille, 2018. http://www.theses.fr/2018AIXM0449/document.

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Au fil du temps, la vie a évolué pour produire des organismes remarquablement complexes. Pour faire face à cette complexité, les organismes ont développé une pléthore de mécanismes régulateurs. Par exemple, les mammifères transcrivent des milliers d'ARN longs non codants (ARNlnc), accroissant ainsi la capacité régulatrice de leurs cellules. Un concept émergent est que les ARNlnc peuvent servir d'échafaudages aux complexes protéiques, mais la prévalence de ce mécanisme n'a pas encore été démontrée. De plus, pour chaque ARN messager, plusieurs régions 3’ non traduites (3’UTRs) sont souvent prése

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11

Titus, Mitchell. "Subunit interactions and protein-DNA interactions of the Drosophila melanogaster small nuclear RNA activating protein complex." Diss., Connect to a 24 p. preview or request complete full text in PDF format. Access restricted to UC campuses, 2007. http://wwwlib.umi.com/cr/ucsd/fullcit?p3283558.

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Thesis (Ph. D.)--University of California, San Diego and San Diego State University, 2007.<br>Title from first page of PDF file (viewed Nov. 21, 2007). Available via ProQuest Digital Dissertations. Vita. Includes bibliographical references.

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12

Takeuchi, Akiko Krol Alain Allmang-Cura Christine. "RNA-protein interaction in the selenoprotein synthesis machinery." Strasbourg : Université de Strasbourg, 2009. http://eprints-scd-ulp.u-strasbg.fr:8080/1133/01/TAKEUCHI_Akiko_2009.pdf.

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Thèse de doctorat : Sciences du Vivant. Aspects moléculaire et cellulaire de la Biologie : Strasbourg : 2009.<br>Thèse soutenue sur un ensemble de travaux. Titre provenant de l'écran-titre. Bibliogr. 11 p.

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13

Méthot, Nathalie. "RNA and protein interactions by eIF4B during translation initiation." Thesis, McGill University, 1996. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=40401.

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One of the most enduring questions pertaining to eukaryotic translation initiation is how the 40S ribosomal subunit recognizes and binds at or near the cap-structure of mRNAs. Eukaryotic initiation factor 4B (eIF4B) is one of the factors that are required for this step of protein synthesis. eIF4B stimulates the RNA helicase activity of eIF4A and eIF4F, melting RNA secondary structure in the 5$ sp prime$ untranslated region (UTR), and is thus believed to contribute to ribosome binding by creating an area of single-stranded RNA accessible to the 40S ribosomal subunit We studied the mechanism of

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14

Bachand, François. "Functional reconstitution and RNA-protein interactions of human telomerase." Thesis, McGill University, 2002. http://digitool.Library.McGill.CA:80/R/?func=dbin-jump-full&object_id=38460.

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Telomerase is a ribonucleoprotein (RNP) enzyme responsible for the replenishment of repetitive DNA sequences present at the ends of most eukaryotic chromosomes. Telomerase is minimally composed of a protein catalytic subunit, the telomerase reverse transcriptase (TERT), and an RNA subunit. Using a small single-stranded segment (7--11 nucleotides) of the telomerase RNA as a template, the active site of the TERT catalytic subunit adds complementary nucleotides onto telomeric DNA. The primary goal of the work presented in this thesis was to biochemically and functionally characterize the human te

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15

Sohrabi-Jahromi, Salma [Verfasser]. "Quantitative Modeling of RNA-Protein Interactions / Salma Sohrabi-Jahromi." Göttingen : Niedersächsische Staats- und Universitätsbibliothek Göttingen, 2021. http://d-nb.info/1233481533/34.

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16

Haussmann, Irmgard Ursula. "RNA-protein interactions in the U7 small nuclear Ribonucleoprotein /." [S.l.] : [s.n.], 1994. http://www.ub.unibe.ch/content/bibliotheken_sammlungen/sondersammlungen/dissen_bestellformular/index_ger.html.

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17

Friedel, Caroline Christina. "Analysis of High-Throughput Data - Protein-Protein Interactions, Protein Complexes and RNA Half-life." Diss., lmu, 2009. http://nbn-resolving.de/urn:nbn:de:bvb:19-96883.

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18

Takeuchi, Akiko. "RNA-protein interaction in the selenoprotein synthesis machinery." Strasbourg, 2009. http://www.theses.fr/2009STRA6054.

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La sélénocystéine est incorporée co-traductionnellement dans les sélénoprotéines en réponse à un codon UGA habituellement l’un des 3 codons stop. La protéine SBP2 joue un rôle majeur dans ce mécanisme de recodage en se liant à une structure en tige-boucle (SECIS) située dans la région 3’UTR de l’ARNm des sélénoprotéines. Nous avons isolé et caractérisé fonctionnellement SBP2 de Drosophila melanogaster. Par comparison avec SBP2 humaine, nous avons identifié un domaine de liaison à l’ARN additionnel essentiel à la liaison au SECIS et à la sous-unité ribosomique 60S et permettant une sélectivité

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19

Kim, Young-Chan. "Protein-ligand and protein-protein interactions involved in de novo initiation of RNA synthesis by the hepatitis C virus (HCV) RNA-dependent RNA polymerase (RdRp)." [Bloomington, Ind.] : Indiana University, 2006. http://gateway.proquest.com/openurl?url_ver=Z39.88-2004&res_dat=xri:pqdiss&rft_val_fmt=info:ofi/fmt:kev:mtx:dissertation&rft_dat=xri:pqdiss:3204540.

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Thesis (Ph. D.)--Indiana University, Dept. of Chemistry, 2006.<br>Source: Dissertation Abstracts International, Volume: 67-01, Section: B, page: 0249. Adviser: C. Cheng Kao. "Title from dissertation home page (viewed Feb. 9, 2007)."

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20

Cass, Danielle Marie. "Role of two RNA binding properties in pre-mRNA splicing /." view abstract or download file of text, 2007. http://proquest.umi.com/pqdweb?did=1400950811&sid=2&Fmt=2&clientId=11238&RQT=309&VName=PQD.

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Thesis (Ph. D.)--University of Oregon, 2007.<br>Typescript. Includes vita and abstract. Includes bibliographical references (leaves 67-80). Also available for download via the World Wide Web; free to University of Oregon users.

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21

Huang, Ching-jung. "The role of HnRNP proteins, PSF and nonO/p54[superscript nrb], in pre-mRNA binding and splicing /." Full text (PDF) from UMI/Dissertation Abstracts International, 2000. http://wwwlib.umi.com/cr/utexas/fullcit?p3004292.

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22

Chan, Yin-tung Crystal, and 陳燕彤. "Demonstration of specific physical interaction between CHOP mRNA and intracellular proteins." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2011. http://hub.hku.hk/bib/B47169369.

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The ability of a cell to respond precisely to environmental stress depends on the expression of a large number of genes in a finely coordinated manner. One of such genes is CHOP that encodes the CCAAT/Enhancer-Binding Protein Homologous Protein. CHOP is usually expressed to mediate apoptosis under the condition of excessive stress. The expression of CHOP therefore has to be stringently regulated as its expression will determine the fate of a cell under stress. The expression of many genes is regulated at the posttranscriptional level through the metabolism of their mRNA, such as maturation, t

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23

Lymperopoulos, Konstantinos. "Functional characterisation of the bluetongue virus non-structural protein NS2-protein and RNA-protein interactions." Thesis, University of Oxford, 2005. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.424733.

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24

Bennett, N. "The role of p2 in protein-RNA interactions of HIV." Thesis, University of Cambridge, 2004. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.596569.

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The two subtypes of the Human Immunodeficiency Virus, HIV-1 and HIV-2, differ in the way that they package their genomic RNA with the structural Gag protein. HIV-1 packages its genomic RNA predominantly in a <i>trans</i> manner, and can cross-package HIV-2 RNA in co-transfections. Conversely, HIV-2 is not capable of packaging HIV-1 RNA reciprocally, and packages its own RNA using a co-translational mechanism. Chimeric viruses where the RNA-binding domain of HIV-1 is substituted into the structural of Gag protein of HIV-2 appear to transfer the <i>trans</i> packaging phenotype, but this functio

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25

Talbot, Simon John. "Structural studies of RNA-protein interactions in the bacteriophage MS2." Thesis, University of Leeds, 1991. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.303328.

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26

Gale, Andrew J. (Andrew John). "Protein-RNA domain-domain interactions in a tRNA sythetase system." Thesis, Massachusetts Institute of Technology, 1995. http://hdl.handle.net/1721.1/39369.

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27

Jung, Jeenah. "Development of optical imaging method for detecting RNA-protein interactions." Diss., Georgia Institute of Technology, 2014. http://hdl.handle.net/1853/54278.

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The localization and translation of messenger ribonucleic acids (mRNAs) play crucial roles in cellular function and diseases, and are regulated by numerous RNA-binding proteins (RBPs) and small non-coding RNAs, called trans-acting factors. Biochemical and imaging methods used to study RNA interactions with these trans-acting elements have made important discoveries in characterizing how these factors regulate gene expression and determining the RNA sequence to which they bind. However, the spatiotemporal information regarding these interactions in subcellular compartments have been difficult t

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28

Chen, Cai. "Quantitative studies of RNA editing and nucleosomal DNA-protein interactions." The Ohio State University, 2014. http://rave.ohiolink.edu/etdc/view?acc_num=osu1417523347.

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29

Lee, Semin. "Molecular characterization of protein-nucleic acid interfaces : applications in bioinformatics." Thesis, University of Cambridge, 2011. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.609284.

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30

Wu, Jiang. "Functional studies of mouse quaking protein /." Full text (PDF) from UMI/Dissertation Abstracts International, 2001. http://wwwlib.umi.com/cr/utexas/fullcit?p3008472.

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31

Henscheid, Kristy L. "Functional conservation and RNA binding of the pre-mRNA splicing factor U2AF65 /." view abstract or download file of text, 2007. http://proquest.umi.com/pqdweb?did=1400950821&sid=5&Fmt=2&clientId=11238&RQT=309&VName=PQD.

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Thesis (Ph. D.)--University of Oregon, 2007.<br>Typescript. Includes vita and abstract. Includes bibliographical references (leaves 129-141). Also available for download via the World Wide Web; free to University of Oregon users.

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32

Defenbaugh, Dawn. "Analysis of hepatitis delta virus RNA structure effects on RNA-protein interactions and viral replication /." Connect to Electronic Thesis (CONTENTdm), 2008. http://worldcat.org/oclc/459757001/viewonline.

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33

Murray, Jill Isobel. "Identification of motifs that function in the splicing of non-canonical introns /." Connect to title online (ProQuest), 2007. http://proquest.umi.com/pqdweb?did=1453227351&sid=1&Fmt=2&clientId=11238&RQT=309&VName=PQD.

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Thesis (Ph. D.)--University of Oregon, 2007.<br>Typescript. Includes vita and abstract. Includes bibliographical references (leaves 76-84). Also available online in ProQuest, free to University of Oregon users.

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34

Rajendran, Kottampatty. "DISSECTING THE FUNCTIONS OF CARMOVIRUS AND TOMBUSVIRUS REPLICASE PROTEINS." UKnowledge, 2004. http://uknowledge.uky.edu/gradschool_diss/432.

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Replication of genetic material is the most important and central process during the viral life cycle. Most RNA viruses assign one or more proteins translated from their own genome for replicating genomic RNAs. Understanding the various biochemical activities of these replication proteins is the aim of this dissertation research. The replicase proteins of Turnip crinkle virus (TCV) and Tomato bushy stunt virus (TBSV) were selected for this study. Both viruses have small, messenger-sense, single-stranded RNA genomes. Replicase proteins p28/p88 of TCV and p33/p92 of TBSV- were expressed and pur

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35

Ramesh, Arati. "Structural studies of the Ro ribonucleoprotein and the metalloregulator CsoR." Thesis, [College Station, Tex. : Texas A&M University, 2007. http://hdl.handle.net/1969.1/ETD-TAMU-1426.

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36

Fan, Yan Baranger Anne M. Katzenellenbogen John A. Zhao Huimin Silverman Scott K. "Exploring protein-RNA interactions with site-directed mutagenesis and phage display." Urbana, IL.: University of Illinois, 2009. http://hdl.handle.net/2142/14755.

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37

Militti, Cristina 1982. "Drosophila UNR regulates dosage compensation through modulation of RNA-protein interactions." Doctoral thesis, Universitat Pompeu Fabra, 2013. http://hdl.handle.net/10803/283476.

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En Drosophila, el desequilibrio en cuanto al contenido de genes ligados al cromosoma X entre hembras (XX) y machos (XY) es corregido mediante la duplicación de la transcripción del único cromosoma X del macho. Este proceso, llamado compensación de dosis, es mediado por un ensamblaje molecular compuesto por al menos cinco proteínas (MSL1, MSL2, MSL3, MLE y MOF) y dos RNAs largos no codificantes (roX1 y roX2), llamado complejo de compensación de dosis (DCC). La compensación de dosis requiere dos condiciones fundamentales: el reconocimiento específico del cromosoma X por el DCC, y la restricción

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38

Armaos, Alexandros 1989. "Computational characterization of protein-RNA interactions and implications for phase separation." Doctoral thesis, Universitat Pompeu Fabra, 2020. http://hdl.handle.net/10803/668546.

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Despite what was previously considered, the role of RNA is not only to carry the genetic information from DNA to proteins. Indeed, RNA has proven to be implicated in more complex cellular processes. Recent evidence suggests that transcripts have a regulatory role on gene expression and contribute to the spatial and temporal organization of the intracellular environment. They do so by interacting with RNA-binding proteins (RBPs) to form complex ribonucleoprotein (RNP) networks, however the key determinants that govern the formation of these complexes are still not well understood. In this

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39

Urena, Gonzalez Luis. "Identification of RNA-protein interactions involved in the norovirus life cycle." Thesis, Imperial College London, 2012. http://hdl.handle.net/10044/1/39844.

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Members of the Caliciviridae family, including murine norovirus (MNV), contain conserved RNA secondary structure elements located at the 5' and 3' regions of the viral genome. The 5' extremity of the genomic (5'G) and subgenomic (5'SG) RNAs, as well as the 3' extremity (3'Ex), are believed to be involved in many aspects of calicivirus life cycle. This project was designed to identify proteins interacting with the extremities of MNV genome, as this would include proteins involved in viral translation and replication. We used a riboproteomics method to isolate RNA-binding proteins by RNA affinit

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40

Osborne, Jane C. "Interactions of Bunyamwera virus nucleocapsid protein and encapsidation of viral RNA." Thesis, University of Glasgow, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.341712.

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41

Karakasiliotis, Ioannis. "Analysis of RNA-protein interactions involved in calicivirus translation and replication." Thesis, Imperial College London, 2008. http://hdl.handle.net/10044/1/1304.

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The interaction of host-cell nucleic acid-binding proteins with the genomes of positive-stranded RNA viruses is known to play a role in the translation and replication of many viruses. To date, however, the characterisation of similar interactions with the genomes of members of the Caliciviridae family has been limited to in vitro binding analysis. In this study, feline calicivirus (FCV) and murine norovirus (MNV) have been used as model systems to identify and characterise the role of host-cell factors that interact with the viral RNA and RNA structures that regulate virus replication. It was

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42

Bailey, Daniel John. "Cellular proteins in picornavirus replication." Thesis, University of Reading, 1999. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.298484.

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43

Loushin, Newman Carrie Lee. "Characterization of QKI RNA binding function /." Full text (PDF) from UMI/Dissertation Abstracts International, 2000. http://wwwlib.umi.com/cr/utexas/fullcit?p3004323.

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44

Lee, Jae-Hyung. "Analysis of protein-RNA and protein-peptide interactions in Equine Infectious Anemia Virus (EIAV) infection." [Ames, Iowa : Iowa State University], 2007.

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45

Deutsch, Christopher Wayne. "Discovery and Characterization of the Proteins Involved in the Synthesis of N⁶-Threonylcarbamoyl Adenosine, a Nucleoside Modification of tRNA." PDXScholar, 2016. http://pdxscholar.library.pdx.edu/open_access_etds/3080.

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N6-threonylcarbamoyl adenosine (t6A) is a universally conserved tRNA modification found at position 37 of tRNAs which decode ANN codons. Structural studies have implicated its presence as a requirement for the disruption of a U-turn motif in certain tRNAs, leading to the formation of properly structured anticodon stem loop. This structure is proposed to enhance the base pairing between U36 of tRNA and A1 of the codon which aids in translational frame maintenance. Despite significant effort since its discovery in the 1970s the enzymes involved in its biosynthesis remained undiscovered. Bioinfor

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46

Rajendran, KS. "Dissecting the functions of carmovirus replicase proteins dissecting the functions of carmovirus tombusvirus replicase proteins dissecting." Lexington, Ky. : [University of Kentucky Libraries], 2004. http://lib.uky.edu/ETD/ukyplpa2004d00150/Rajendra.pdf.

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Thesis (Ph. D.)--University of Kentucky,2004.<br>Title from document title page (viewed Oct. 12, 2004). Document formatted into pages; contains ix, 111 p. : ill. Includes abstract and vita. Includes bibliographical references (p. 97-110).

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47

Tsai, Hsin-Yue. "Elucidating the role of protein cofactors in RNA catalysis using ribonuclease P as the model system." Columbus, Ohio : Ohio State University, 2006. http://rave.ohiolink.edu/etdc/view?acc%5Fnum=osu1141769728.

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48

Sidiqi, Mahjooba. "The structure and RNA-binding of poly (C) protein 1." University of Western Australia. School of Biomedical, Biomolecular and Chemical Sciences, 2008. http://theses.library.uwa.edu.au/adt-WU2008.0077.

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[Truncated abstract] Regulation of mRNA stability is an important posttranscriptional mechanism involved in the control of gene expression. The rate of mRNA decay can differ greatly from one mRNA to another and may be regulated by RNA-protein interactions. A key determinant of mRNA decay are sequence instability (cis) elements often located in the 3' untranslated region (UTR) of many mRNAs. For example, the AU rich elements (AREs), are such well characterized elements, and most commonly involved in promoting mRNA degradation, and specific binding of proteins to these elements leading to the st

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49

Moran-Jones, Kim. "hnRNPs A2 and A3 : nucleic acid interactions /." St. Lucia, Qld, 2004. http://www.library.uq.edu.au/pdfserve.php?image=thesisabs/absthe17983.pdf.

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50

Dry, Inga Ruth. "Functional analysis of viral RNA and protein-RNA interactions involved in the replication of poliovirus type 3." Thesis, University of Glasgow, 2004. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.409998.

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