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Dissertations / Theses on the topic 'Proteina transmembrana'

Author: Grafiati

Published: 4 June 2021

Last updated: 13 February 2022

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1

Simón, Vázquez Rosana. "Influencia de la movilidad de las hélices en la función de la bacteriorodopsina." Doctoral thesis, Universitat Autònoma de Barcelona, 2009. http://hdl.handle.net/10803/3612.

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La bacteriorodopsina (BR) es una proteína transportadora de protones que se encuentra en la membrana de la arqueobacteria H. salinarum. Consta de siete hélices α y un cromóforo, el retinal, unido covalentemente a la hélice G. Ha sido muy estudiada debido a su similitud con la rodopsina visual y otras proteínas de la familia de las GPCRs, además de formar parte de uno de los sistemas fotosintéticos más sencillos que se conocen. La BR se activa mediante la absorción de un fotón por parte del retinal, lo que proporciona la energía necesaria para realizar el fotociclo. El resultado final es e

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2

Käll, Lukas. "Predicting transmembrane topology and signal peptides with hidden Markov models /." Stockholm, 2006. http://diss.kib.ki.se/2006/91-7140-719-7/.

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3

Kulman, John David. "Transmembrane Gla proteins /." Thesis, Connect to this title online; UW restricted, 2001. http://hdl.handle.net/1773/9271.

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4

Kelm, Sebastian. "Structural modelling of transmembrane domains." Thesis, University of Oxford, 2011. http://ora.ox.ac.uk/objects/uuid:b4c9fba9-ee25-469b-8baf-b7c1d70c9d05.

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Membrane proteins represent about one third of all known vertebrate proteins and over half of the current drug targets. Knowledge of their three-dimensional (3D) structure is worth millions of pounds to the pharmaceutical industry. Yet experimental structure elucidation of membrane proteins is a slow and expensive process. In the absence of experimental data, computational modelling tools can be used to close the gap between the numbers of known protein sequences and structures. However, currently available structure prediction tools were developed with globular soluble proteins in mind and pe

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5

Qureshi, Tabussom. "Studying Transmembrane Helix Interactions in SDS micelles." Thesis, Université d'Ottawa / University of Ottawa, 2016. http://hdl.handle.net/10393/34417.

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The importance of interactions between transmembrane domains of integral membrane proteins has been well-established in a range of essential cellular functions. Most integral membrane proteins also possess regions that lie on the exterior of the membrane that may influence the ability of these transmembrane domains to interact. We sought to test this hypothesis by quantifying the energetics of transmembrane helix self-association in the absence and presence of an amphipathic helix that can bind to the membrane surface. The model chosen for this study was the major coat protein (MCP) of M13 ba

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6

Schroeder, Michael, Annalisa Marsico, Andreas Henschel та ін. "Structural fragment clustering reveals novel structural and functional motifs in α-helical transmembrane proteins". Saechsische Landesbibliothek- Staats- und Universitaetsbibliothek Dresden, 2015. http://nbn-resolving.de/urn:nbn:de:bsz:14-qucosa-177368.

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Background A large proportion of an organism's genome encodes for membrane proteins. Membrane proteins are important for many cellular processes, and several diseases can be linked to mutations in them. With the tremendous growth of sequence data, there is an increasing need to reliably identify membrane proteins from sequence, to functionally annotate them, and to correctly predict their topology. Results We introduce a technique called structural fragment clustering, which learns sequential motifs from 3D structural fragments. From over 500,000 fragments, we obtain 213 statistically signifi

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7

Doak, David G. "Peptide models of transmembrane proteins." Thesis, University of Oxford, 1994. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.359445.

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8

Hedin, Linnea E. "Intra- and intermolecular interactions in proteins : Studies of marginally hydrophobic transmembrane alpha-helices and protein-protein interactions." Doctoral thesis, Stockholms universitet, Institutionen för biokemi och biofysik, 2010. http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-42856.

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Most of the processes in a living cell are carried out by proteins. Depending on the needs of the cell, different proteins will interact and form the molecular machines demanded for the moment. A subset of proteins called integral membrane proteins are responsible for the interchange of matter and information across the biological membrane, the lipid bilayer enveloping and defining the cell. Most of these proteins are co-translationally integrated into the membrane by the Sec translocation machinery. This thesis addresses two questions that have emerged during the last decade. The first concer

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9

Hagelbäck, Johan, and Kenny Svensson. "Locating transmembrane domains in protein sequences." Thesis, Blekinge Tekniska Högskola, Institutionen för programvaruteknik och datavetenskap, 2003. http://urn.kb.se/resolve?urn=urn:nbn:se:bth-2752.

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We have developed a new approach for locating transmembrane domains in protein sequences based on hydrophobicity analysis and backpropagation neural network or k-nearest-neighbor as classifiers. Our system was able to locate over 98% of the transmembrane domains and the total accuracy including overpredictions was above 95%.

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10

Schroeder, Michael, Annalisa Marsico, Andreas Henschel та ін. "Structural fragment clustering reveals novel structural and functional motifs in α-helical transmembrane proteins". BioMed Central, 2010. https://tud.qucosa.de/id/qucosa%3A28887.

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Background A large proportion of an organism's genome encodes for membrane proteins. Membrane proteins are important for many cellular processes, and several diseases can be linked to mutations in them. With the tremendous growth of sequence data, there is an increasing need to reliably identify membrane proteins from sequence, to functionally annotate them, and to correctly predict their topology. Results We introduce a technique called structural fragment clustering, which learns sequential motifs from 3D structural fragments. From over 500,000 fragments, we obtain 213 statistically signifi

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11

Son, Hyeon S. "Prediction of membrane protein structure." Thesis, University of Oxford, 1997. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.337775.

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12

Adcock, Stewart Alan. "Computer simulation of membrane bound molecules." Thesis, University of Oxford, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.249194.

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13

Jacobson, Leslie William. "Antibodies to the human muscle acetylcholine receptor : their specificity and function in the foetus." Thesis, University of Oxford, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.299108.

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14

Garrow, Andrew Gordon. "Search algorithms for transmembrane beta-barrel proteins." Thesis, University of Leeds, 2006. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.427773.

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15

Peters, Christoph. "Topology Prediction of α-Helical Transmembrane Proteins". Doctoral thesis, Stockholms universitet, Institutionen för biokemi och biofysik, 2016. http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-129061.

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Membrane proteins fulfil a number of tasks in cells, including signalling, cell-cell interaction, and the transportation of molecules. The prominence of these tasks makes membrane proteins an important target for clinical drugs. Because of the decreasing price of sequencing, the number of sequences known is increasing at such a rate that manual annotations cannot compete. Here, topology prediction is a way to provide additional information. It predicts the location and number of transmembrane helices in the protein and the orientation inside the membrane. An important factor to detect transmem

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16

Batrakou, Dzmitry G. "Nuclear envelope transmembrane proteins in differentiation systems." Thesis, University of Edinburgh, 2012. http://hdl.handle.net/1842/9981.

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Historically, our perception of the nuclear envelope has evolved from a simple barrier isolating the genome from the rest of a cell to a complex system that regulates functions including transcription, splicing, DNA replication and repair and development. Several recent proteomic studies uncovered a great variety of nuclear envelope transmembrane proteins (NETs). Diseases associated with several nuclear envelope proteins, mostly NETs, affect many tissues e.g. muscle, adipose tissue, skin, bones. Many NETs of the inner nuclear membrane have been shown to interact with chromatin, suggesting that

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17

Nugent, T. C. O. "Transmembrane protein structure prediction using machine learning." Thesis, University College London (University of London), 2010. http://discovery.ucl.ac.uk/792008/.

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This thesis describes the development and application of machine learning-based methods for the prediction of alpha-helical transmembrane protein structure from sequence alone. It is divided into six chapters. Chapter 1 provides an introduction to membrane structure and dynamics, membrane protein classes and families, and membrane protein structure prediction. Chapter 2 describes a topological study of the transmembrane protein CLN3 using a consensus of bioinformatic approaches constrained by experimental data. Mutations in CLN3 can cause juvenile neuronal ceroid lipofuscinosis, or Batten dise

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18

Dasso, Leonardo. "Receptor-G protein interactions in rat hepatocytes." Thesis, University of Cambridge, 1993. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.282114.

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19

Nordström, Karl J. V. "Characterization and Evolution of Transmembrane Proteins with Focus on G-protein coupled receptors in Pre-vertebrate Species." Doctoral thesis, Uppsala universitet, Funktionell farmakologi, 2010. http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-121696.

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G protein-coupled receptors (GPCRs) are one of the largest protein families in mammals. GPCRs are instrumental for hormonal and neurotransmitter signalling and are important in all major physiological systems of the body. Paper I describes the repertoire of GPCRs in Branchiostoma floridae, which is one of the species most closely related species to vertebrates. Mining and phylogenetic analysis of the amphioxus genome showed the presence of at least 664 distinct GPCRs distributed among all the main families of GPCRs; Glutamate (18), Rhodopsin (570), Adhesion (37), Frizzled (6) and Secretin (16)

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20

Crick, Duncan James. "Solution NMR studies of seven-transmembrane helix proteins." Thesis, University of Cambridge, 2015. https://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.708906.

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21

Berthoumieu, Olivia. "Single molecule studies of seven transmembrane domain proteins." Thesis, University of Oxford, 2011. http://ora.ox.ac.uk/objects/uuid:ff7ae71d-5481-4523-812b-2128fe32f5fc.

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This work aimed at studying biophysical properties of two membrane proteins, one of potential nanotechnological use, bacteriorhodopsin, and one potential drug target, the NTS1 neurotensin receptor, at the single molecule scale. Bacteriorhodopsin (BR) is the only protein in the purple membrane (PM) of the halophilic organism Halobacterium salinarium. It is a light-driven proton pump converting light into a transmembrane proton gradient through isomerization of its retinal chromophore. Its stability, as well as its photoactivity remaining in dry protein layers, has made BR an attractive material

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22

Abd, Halim Khairul Bariyyah. "Molecular dynamics simulation studies of transmembrane signalling proteins." Thesis, University of Oxford, 2014. http://ora.ox.ac.uk/objects/uuid:bc9e1e0e-433c-4adb-8374-1065eac0f37e.

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Receptor tyrosine kinases (RTKs) are a major class of cell surface receptors, important in cell signalling events associated with a variety of functions. High-throughput (HTP), coarse-grained molecular dynamics (CG-MD) simulations have been used to investigate the dimerization of the transmembrane (TM) domain of selected RTKs, including epidermal growth factor receptor (EGFR) and muscle-specific kinase (MuSK). EGFR activation requires not only a specific TM dimer interface, but also a proper orientation of its juxtamembrane (JM) domain. Phosphatidylinositol 4,5-bisphosphate (PIP<sub>2</sub>) i

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23

Suzuki, Takayuki. "Functional Swapping between Transmembrane Proteins TMEM16A and TMEM16F." Kyoto University, 2014. http://hdl.handle.net/2433/188693.

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24

Cordomí, Montoya Arnau. "Molecular dynamics simulations of seven-transmembrane receptors." Doctoral thesis, Universitat Politècnica de Catalunya, 2008. http://hdl.handle.net/10803/6464.

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Seven transmembrane (7-TM) G protein coupled receptors (GPCR) constitute the largest family of integral membrane proteins in eukaryotes with more than 1000 members and encoding more than 2% of the human genome. These proteins play a key role in the transmission and transduction of cellular signals responding to hormones, neurotransmitters, light and other agonists, regulating basic biological processes. Their natural abundance together with their localization in the cell membrane makes them suitable targets for therapeutic intervention. Consequently, GPCR are proteins with enormous pharmacolog

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25

Stevens, Timothy John. "Statistical analyses of transmembrane protein sequence and structure." Thesis, University of Cambridge, 2002. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.620343.

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26

Matsuo, Yoshiyuki. "Identification of a Novel Thioredoxin-related Transmembrane Protein." Kyoto University, 2001. http://hdl.handle.net/2433/150552.

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27

Kunz, Gabriella. "Thrombomodulin gene mutations and their importance in thrombosis." Thesis, Imperial College London, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.248444.

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28

Goldstein, Rebecca F. "Protein interaction and cell surface trafficking differences between wild-type and [Delta]F508 cystic fibrosis transmembrane conductance regulator." Thesis, Birmingham, Ala. : University of Alabama at Birmingham, 2007. https://www.mhsl.uab.edu/dt/2007p/goldstein.pdf.

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29

Jenn, Robert. "A systematic analysis of human transmembrane E3-RING proteins." Thesis, University of Liverpool, 2011. http://livrepository.liverpool.ac.uk/5913/.

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The reversible covalent conjugation of the small highly conserved ubiquitin protein modifier to selective substrates plays central roles in countless proteolytic and non-proteolytic cellular functions. Substrate protein ubiquitination is co-ordinated by the sequential activity of three distinct classes of proteins: (i) E1-activating enzymes, (ii) E2-conjugating enzymes, and (iii) E3-protein ligases. Really Interesting New Gene (RING) proteins represent the largest family of E3-proteins comprising over half of predicted human E3-ligases. As such, E3-RING proteins play pivotal roles in controlli

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30

de, Marothy Tuuli Minttu Virkki. "Marginally hydrophobic transmembrane α-helices shaping membrane protein folding". Doctoral thesis, Stockholms universitet, Institutionen för biokemi och biofysik, 2014. http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-109335.

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Most membrane proteins are inserted into the membrane co-translationally utilizing the translocon, which allows a sufficiently long and hydrophobic stretch of amino acids to partition into the membrane. However, X-ray structures of membrane proteins have revealed that some transmembrane helices (TMHs) are surprisingly hydrophilic. These marginally hydrophobic transmembrane helices (mTMH) are not recognized as TMHs by the translocon in the absence of local sequence context. We have studied three native mTMHs, which were previously shown to depend on a subsequent TMH for membrane insertion. Thei

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31

Jaffer, Ali Mohammed Hakim. "Multifaceted roles of the transmembrane nuclear envelope protein, Samp1." Doctoral thesis, Stockholms universitet, Institutionen för neurokemi, 2017. http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-141816.

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The eukaryotic nuclear envelope (NE), separates the nucleoplasm from cytoplasm and is made up of two concentric lipid membranes, the outer and the inner nuclear membranes (ONM and INM), the nuclear pore complexes (NPCs) and an underlying filamentous nuclear lamina. The INM contains hundreds of unique transmembrane proteins of which only a handful have been characterized. In this thesis, I aimed to understand the functional organization of proteins in the nuclear envelope and I focused on investigating the functions of a recently identified INM transmembrane protein, Samp1. We have developed a

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32

Tilley, Frances Catherine. "Regulation of transmembrane protein recycling by the retromer complex." Thesis, University of Bristol, 2016. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.715833.

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33

Mauk, Andrew W. "Determination of the structure of the magainin II transmembrane channel." Diss., Georgia Institute of Technology, 1999. http://hdl.handle.net/1853/11708.

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34

Maher, Geoffrey. "Characterisation of transmembrane protein 114 (TMEM114), a protein associated with juvenile onset cataract." Thesis, University of Manchester, 2011. https://www.research.manchester.ac.uk/portal/en/theses/characterisation-of-transmembrane-protein-114-tmem114-a-protein-associated-with-juvenile-onset-cataract(baf638e9-d130-4a5e-a74a-ac0ce7824d51).html.

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Transmembrane protein 114 (TMEM114) is an uncharacterised predicted transmembrane protein expressed in the lens epithelium. A balanced translocation that transects the putative promoter of TMEM114 is associated with autosomal dominant congenital cataract (ADCC), however, coding sequence variants in TMEM114 were not identified in a panel of ADCC patients. Subsequent to the identification of TMEM114 a similar novel transmembrane protein named TMEM114-like protein 1 (TMLP1) was identified. This study aimed to functionally characterise the two novel proteins TMEM114 and TMLP1.TMEM114 and TMLP1 sho

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35

Briant, Kit. "The quality control of transmembrane domains along the secretory pathway." Thesis, University of Manchester, 2015. https://www.research.manchester.ac.uk/portal/en/theses/the-quality-control-of-transmembrane-domains-along-the-secretory-pathway(a3246153-20c6-42c9-9be4-eed490bec54a).html.

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Protein quality control is crucial to maintaining cellular function. A failure to clear misfolded, aggregation prone proteins can lead to the accumulation of toxic protein aggregates that interfere with cellular pathways and lead to cell death. In addition, the degradation of partially functional proteins can lead to loss of function diseases. Understanding proteins quality control mechanisms is therefore of fundamental importance to understanding these disease pathways. Systems that operate to monitor the structure of soluble protein domains are now relatively well understood. However, in add

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36

Togawa, Roberto Coiti. "Development of a suite of bioinformatics tools for the analysis and prediction of membrane protein structure." Thesis, University of Bedfordshire, 2006. http://hdl.handle.net/10547/614881.

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This thesis describes the development of a novel approach for prediction of the three-dimensional structure of transmembrane regions of membrane proteins directly from amino acid sequence and basic transmembrane region topology. The development rationale employed involved a knowledge-based approach. Based on determined membrane protein structures, 20x20 association matrices were generated to summarise the distance associations between amino acid side chains on different alpha helical transmembrane regions of membrane proteins. Using these association matrices, combined with a knowledge-based s

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37

D'Rozario, Robert S. G. "Conformational dynamics of proline-containing transmembrane helices." Thesis, University of Oxford, 2006. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.670181.

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38

Nilsson, IngMarie. "Conformational properties of transmembrane polypeptide segments in the ER membrane /." Stockholm, 1999. http://diss.kib.ki.se/1999/91-628-3613-7/.

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39

Cassel, Marika. "Studies on the Conformation of Transmembrane Polypeptides in Membrane Proteins." Doctoral thesis, Stockholm : Deptartment of Biochemistry & Biophysics, Stockholm University, 2005. http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-759.

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40

Hurwitz, N. "Developing a novel method for homology detection of transmembrane proteins." Thesis, University College London (University of London), 2013. http://discovery.ucl.ac.uk/1386009/.

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Analysis of the complete genomic sequences for several organisms indicates that 20-25% of all genes code for transmembrane proteins (Jones, 1998, Wallin and von Heijne, 1998), yet only a very small number of transmembrane 3D structures are known. Hence, it is of great importance to develop theoretical methods capable of predicting transmembrane protein structure and function based on protein sequence alone. To address this, we sought to devise a systematic and high throughput method for identifying homologous transmembrane proteins. Since protein structure is more evolutionarily conserved than

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41

Holdbrook, Daniel. "Molecular dynamics studies of transmembrane proteins within complex lipid environments." Thesis, University of Southampton, 2013. https://eprints.soton.ac.uk/366965/.

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The interactions between lipids and proteins are crucial for many cellular processes. Typically, the nature of these interactions is studied in simple model lipid bilayers, which lack the complexity and heterogeneity of in vivo systems. Thus, this thesis investigates the impact of the lipid bilayer composition on protein dynamics and function. Both coarse grain and atomistic molecular dynamics simulations have been used to model membranes that contain lipid compositions approximating those found in vivo. The influence of these complex lipid environments on the dynamics of α-helical and β-barre

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42

Le, Thanh Phu. "Nuclear envelope transmembrane proteins as mediators of tissue-specific diseases." Thesis, University of Edinburgh, 2017. http://hdl.handle.net/1842/28905.

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Many tissue-restricted diseases are linked to mutations in lamins and nuclear envelope transmembrane proteins (NETs). How these mutations in ubiquitously expressed proteins cause such defined diseases is still unknown. It is hypothesized that tissue restricted NETs that are partners of the nuclear lamins/existing linked proteins mediate tissue-specific disease pathologies. Proteomic studies have identified many tissue restricted NETs with effects on the cytoskeleton, gene positioning and regulation. This study investigates potential roles of candidate NETs in mediating tissue restricted diseas

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43

Thevenin, Damien. "Roles of transmembrane domains in the folding and assembly of the adenosine A2A receptor." Access to citation, abstract and download form provided by ProQuest Information and Learning Company; downloadable PDF file, 170 p, 2007. http://proquest.umi.com/pqdweb?did=1260822171&sid=2&Fmt=2&clientId=8331&RQT=309&VName=PQD.

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44

Borowsky, Mark Lee 1966. "Identification and characterization of layilin, a talin-binding transmembrane protein." Thesis, Massachusetts Institute of Technology, 1999. http://hdl.handle.net/1721.1/84742.

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45

Yano, Yoshiaki. "Fundamental studies on membrane protein folding using model transmembrane helices." 京都大学 (Kyoto University), 2005. http://hdl.handle.net/2433/145190.

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46

Brosig, Annika [Verfasser]. "Analysis of a PTEN-associated protein scaffold containing the transmembrane protein PRG2 / Annika Brosig." Berlin : Freie Universität Berlin, 2018. http://d-nb.info/1171431309/34.

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Lang, Christina [Verfasser], and Christian [Akademischer Betreuer] Haass. "Transmembrane protein 106B, a risk factor in frontotemporal lobar degeneration, is a lysosomal type II transmembrane protein and affects autophagy / Christina Lang. Betreuer: Christian Haass." München : Universitätsbibliothek der Ludwig-Maximilians-Universität, 2016. http://d-nb.info/1095484575/34.

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48

Webb, Stacy. "Viral Fusion Protein TM-TM Interactions: Modulators of Protein Function and Potential Antiviral Targets." UKnowledge, 2017. http://uknowledge.uky.edu/biochem_etds/30.

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Enveloped viruses, such as HIV, influenza, and Ebola, utilize surface glycoproteins to bind and fuse with a target cell membrane. This fusion event is necessary for release of viral genomic material so the virus can ultimately reproduce and spread. The recently emerged Hendra virus (HeV) is a negative-sense, single-stranded RNA paramyxovirus that presents a considerable threat to human health as there are currently no human vaccines or antivirals available. The HeV utilizes two surface glycoproteins, the fusion protein (F) and the attachment protein (G), to drive membrane fusion. Through this

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49

Zeng, Bo Verfasser], Dmitrij [Akademischer Betreuer] Frishman, Dmitrij [Gutachter] Frishman, and Dieter [Gutachter] [Langosch. "Computational analysis and prediction of protein interaction sites in transmembrane proteins / Bo Zeng ; Gutachter: Dmitrij Frishman, Dieter Langosch ; Betreuer: Dmitrij Frishman." München : Universitätsbibliothek der TU München, 2019. http://d-nb.info/118563794X/34.

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50

Xu, Wei. "The Use of Internal and External Functional Domains to Improve Transmembrane Protein Topology Prediction." Thesis, University of Waterloo, 2004. http://hdl.handle.net/10012/1073.

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Membrane proteins are involved in vital cellular functions and have important implications in disease processes, drug design and therapy. However, it is difficult to obtain diffraction quality crystals to study transmembrane protein structure. Transmembrane protein topology prediction tools try to fill in the gap between abundant number of transmembrane proteins and scarce number of known membrane protein structures (3D structure and biochemically characterized topology). However, at present, the prediction accuracy is still far from perfect. TMHMM is the current state-of- the-art

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