Relevant bibliographies by topics / Protein Tags

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  2. Dissertations / Theses
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Academic literature on the topic 'Protein Tags'

Author: Grafiati
Published: 4 June 2021
Last updated: 8 February 2022

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Journal articles on the topic "Protein Tags"

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Mishra, Vibhor. "Affinity Tags for Protein Purification." Current Protein & Peptide Science 21, no. 8 (2020): 821–30. http://dx.doi.org/10.2174/1389203721666200606220109.

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The affinity tags are unique proteins/peptides that are attached at the N- or C-terminus of the recombinant proteins. These tags help in protein purification. Additionally, some affinity tags also serve a dual purpose as solubility enhancers for challenging protein targets. By applying a combinatorial approach, carefully chosen affinity tags designed in tandem have proven to be very successful in the purification of single proteins or multi-protein complexes. In this mini-review, the key features of the most commonly used affinity tags are discussed. The affinity tags have been classified into two significant categories, epitope tags, and protein/domain tags. The epitope tags are generally small peptides with high affinity towards a chromatography resin. The protein/domain tags often perform double duty as solubility enhancers as well as aid in affinity purification. Finally, protease-based affinity tag removal strategies after purification are discussed.
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BORMAN, STU. "ACTIVATION OF PROTEIN TAGS." Chemical & Engineering News 88, no. 8 (2010): 7. http://dx.doi.org/10.1021/cen-v088n008.p007.

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Thorn, Kurt. "Genetically encoded fluorescent tags." Molecular Biology of the Cell 28, no. 7 (2017): 848–57. http://dx.doi.org/10.1091/mbc.e16-07-0504.

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Genetically encoded fluorescent tags are protein sequences that can be fused to a protein of interest to render it fluorescent. These tags have revolutionized cell biology by allowing nearly any protein to be imaged by light microscopy at submicrometer spatial resolution and subsecond time resolution in a live cell or organism. They can also be used to measure protein abundance in thousands to millions of cells using flow cytometry. Here I provide an introduction to the different genetic tags available, including both intrinsically fluorescent proteins and proteins that derive their fluorescence from binding of either endogenous or exogenous fluorophores. I discuss their optical and biological properties and guidelines for choosing appropriate tags for an experiment. Tools for tagging nucleic acid sequences and reporter molecules that detect the presence of different biomolecules are also briefly discussed.
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Wilkins, Marc R., Elisabeth Gasteiger, Jean-Charles Sanchez, Ron D. Appel, and Denis F. Hochstrasser. "Protein identification with sequence tags." Current Biology 6, no. 12 (1996): 1543–44. http://dx.doi.org/10.1016/s0960-9822(02)70764-1.

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Neklesa, Taavi K., and Craig M. Crews. "Greasy tags for protein removal." Nature 487, no. 7407 (2012): 308–9. http://dx.doi.org/10.1038/487308a.

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Grosse, Christian, and Georg Michael Sheldrick. "Protein tags as phasing tools?" Acta Crystallographica Section A Foundations of Crystallography 66, a1 (2010): s126. http://dx.doi.org/10.1107/s0108767310097254.

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Lilie, Hauke, Susanne Richter, Sabine Bergelt, Stefan Frost, and Franziska Gehle. "Polyionic and cysteine-containing fusion peptides as versatile protein tags." Biological Chemistry 394, no. 8 (2013): 995–1004. http://dx.doi.org/10.1515/hsz-2013-0116.

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Abstract In response to advances in proteomics research and the use of proteins in medical and biotechnological applications, recombinant protein production and the design of specific protein characteristics and functions has become a widely used technology. In this context, protein fusion tags have been developed as indispensable tools for protein expression, purification, and the design of functionalized surfaces or artificially bifunctional proteins. Here we summarize how positively or negatively charged polyionic fusion peptides with or without an additional cysteine can be used as protein tags for protein expression and purification, for matrix-assisted refolding of aggregated protein, and for coupling of proteins either to technologically relevant matrices or to other proteins. In this context we used cysteine-containing polyionic fusion peptides for the design of immunotoxins. In general, polyionic fusion tags can be considered as a multifunctional module in protein technology.
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Mani, Inderjeet, Zhangzhi Hu, Seok Bae Jang, et al. "Protein Name Tagging Guidelines: Lessons Learned." Comparative and Functional Genomics 6, no. 1-2 (2005): 72–76. http://dx.doi.org/10.1002/cfg.452.

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Interest in information extraction from the biomedical literature is motivated by the need to speed up the creation of structured databases representing the latest scientific knowledge about specific objects, such as proteins and genes. This paper addresses the issue of a lack of standard definition of the problem of protein name tagging. We describe the lessons learned in developing a set of guidelines and present the first set of inter-coder results, viewed as an upper bound on system performance. Problems coders face include: (a) the ambiguity of names that can refer to either genes or proteins; (b) the difficulty of getting the exact extents of long protein names; and (c) the complexity of the guidelines. These problems have been addressed in two ways: (a) defining the tagging targets as protein named entities used in the literature to describe proteins or protein-associated or -related objects, such as domains, pathways, expression or genes, and (b) using two types of tags, protein tags and long-form tags, with the latter being used to optionally extend the boundaries of the protein tag when the name boundary is difficult to determine. Inter-coder consistency across three annotators on protein tags on 300 MEDLINE abstracts is 0.868 F-measure. The guidelines and annotated datasets, along with automatic tools, are available for research use.
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Wei, Yihao, Aibo Shi, Xiting Jia, et al. "Nitrogen Supply and Leaf Age Affect the Expression of TaGS1 or TaGS2 Driven by a Constitutive Promoter in Transgenic Tobacco." Genes 9, no. 8 (2018): 406. http://dx.doi.org/10.3390/genes9080406.

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Glutamine synthetase (GS) plays a key role in nitrogen metabolism. Here, two types of tobacco transformants, overexpressing Triticum aestivum GS1 (TaGS1) or GS2 (TaGS2), were analysed. Four independent transformed lines, GS1-TR1, GS1-TR2, GS2-TR1 and GS2-TR2, were used for the nitrogen treatment. Under nitrogen-sufficient conditions, the leaves of GS2-TR showed high accumulation of the TaGS2 transcript, while those of GS1-TR showed a low TaGS1 transcript levels. However, compared with nitrogen-sufficient conditions, the TaGS1 transcript level increased in the leaves under nitrogen starvation, but the TaGS2 transcript level decreased. In addition, the TaGS1 and TaGS2 transcript levels were highest in the middle leaves under nitrogen-sufficient and starvation conditions. These results show that nitrogen supply and leaf age regulate TaGS expression, even when they are driven by a super-promoter. Additionally, in regard to nitrogen metabolism level, the lower leaves of the GS1-TR exhibited lower NH4+ and higher amino acid contents, while the upper leaves exhibited higher amino acid, soluble protein and chlorophyll contents. The leaves of the GS2-TR exhibited lower NH4+ but higher amino acid, soluble protein and chlorophyll contents. Given the role that GS isoforms play in nitrogen metabolism, these data suggest that TaGS1 overexpression may improve nitrogen transport, and that TaGS2 overexpression may improve nitrogen assimilation under nitrogen stress.
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Kapelner, Rachel A., and Allie C. Obermeyer. "Ionic polypeptide tags for protein phase separation." Chemical Science 10, no. 9 (2019): 2700–2707. http://dx.doi.org/10.1039/c8sc04253e.

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Dissertations / Theses on the topic "Protein Tags"

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Fierer, J. O. "Development of spontaneous isopeptide bond formation for ligation of peptide tags." Thesis, University of Oxford, 2014. http://ora.ox.ac.uk/objects/uuid:833289ee-87cf-42f0-a66f-ca9ef9dd6420.

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Peptide tags are ubiquitous in the life sciences, with roles including purification and selective labeling of proteins. Because peptide tags are small they have a limited surface area for binding and hence usually form low affinity protein interactions. These weak interactions limit the uses of peptide tags in cases that require resistance to forces generated with macromolecular architectures or protein motors. Hence a way to create a covalent interaction with a peptide tag would be useful. It was found possible to create a covalent bond-forming peptide tag using the spontaneous isopeptide chemistry of the CnaB2 domain from the Gram-positive bacterium Streptococcus pyogenes. In the CnaB2 domain a reactive Lysine forms an isopeptide bond with an Aspartic acid, catalyzed by a Glutamic acid, creating an internal covalent linkage. Subsequently it was shown that the CnaB2 domain could be split into two parts, a domain with the Lysine and Glutamic acid called SpyCatcher and a peptide with the Aspartic acid called SpyTag, such that the isopeptide covalent linkage can be formed when SpyCatcher/SpyTag are mixed together. SpyCatcher/SpyTag was applied in this thesis and showed functionality in a wide array of scenarios. SpyCatcher/SpyTag covalently linked within the cytosol of E. coli, on surface membrane proteins of HeLa cells, and regardless of whether SpyTag was located on the N- or C-terminus or an internal site. Crystal structures of SpyCatcher/SpyTag were then obtained and it was found possible to shrink the SpyCatcher by 32 residues to a core domain of 83 residues. To create an even smaller covalent linkage system, SpyCatcher was split further to generate a protein (SpyLigase) ligating two peptide tags. The β-sheet with the reactive Lysine was removed from SpyCatcher and called KTag. SpyLigase could covalently link SpyTag and KTag. SpyLigase-induced ligation was independent of the location of SpyTag/KTag on the target proteins and was applied to create affibody polymers, which were shown to improve magnetic isolation of cells with low tumor antigen expression. Through this work protein-protein covalent linkage systems were refined and generated that have future applications for the creation of unique macromolecular structures, cellular labeling, and protein cyclization.
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Koutzamani, Elisavet. "Chromatin, histones, and epigenetic tags." Doctoral thesis, Linköping : Linköping University, 2006. http://www.bibl.liu.se/liupubl/disp/disp2006/med960s.pdf.

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Shah, Bindiya. "Identification of genes encoding secreted proteins of schistosomes." Thesis, University of York, 2000. http://etheses.whiterose.ac.uk/9801/.

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Hassinen, Cynthia. "Effects of fusion tags on protein partitioning In aqueous two-phase systems and use in primary protein recovery." Licentiate thesis, KTH, Biotechnology, 2002. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-1391.

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<p>The two techniques aqueoustwo-phase partitioning and expanded bed adsorption that bothare suitable for primary protein recovery were studied. Most ofthe work was focused on partition in aqueous two-phase systemsand in particular on the possibility to effect the partitionbehaviour by fusion of short peptide tags or protein domains tothe target protein.</p><p>The partitioning of fusionproteins between different variants of the domain tag Z and thenaturally occurring protein DNA Klenow polymerase were studiedin Breox/Reppal aqueous two-phase systems. Most studies wereperformed with cell homogenate. The Breox/Reppal system was infocus because if the fusion protein can be partitioned to theBreox-rich top phase the next step can be a thermoseparatingaqueous two-phase system. When the Breox phase is heated to50°C it switches from a one-phase system to a two-phasesystem resulting in an almost pure water rich top phase andhighly concentrated Breox-rich bottom phase. The Breox can thenbe reused and the protein recovered from the water phase. TheZ-domain was genetically modified in different ways to Z<sub>basic1</sub>, Z<sub>acid2</sub>and Z<sub>trp12</sub>and fused to the Klenow protein to try toenhance partitioning to the Breox-rich phase. From theexperiments it was not possible to observe any effects on thepartition behaviour irrespectively of tested properties of thedomain tag. Despite the absence of domain tag effects highK-values, i.e. partition to the Breox-rich top phase, wereobserved in the Breox/Reppal system. However, the proteinK-values seemed to be rather sensitive to the cell homogenateload and showed a tendency to decrease with increased cellhomogenate load. Also increased phosphate concentration reducedthe K-values. The partitioning of cell debris also seemed todependent on the cell homogenate load. At higher homogenateload (<=20g DW/L) clear Breox-rich top phases were observedwith the cell debris collected in Reppal-rich bottomphases.</p><p>Two different tetrapeptides,AlaTrpTrpPro and AlaIleIlePro were inserted near the C-terminusof the protein ZZT0. The Trp-rich peptide unit stronglyincreased both the partitioning of ZZT0 into the poly(ethyleneglycol) (PEG)-rich phase in a PEG/potassium phosphate aqueoustwo-phase system and its retention on PEG and propylhydrophobic interaction chromatographic columns with potassiumphosphate as eluent in isocratic systems. Both the partitioningand the retention increased with increasing number of Trp-richpeptide units inserted into ZZT0. Insertion of Ile-richtetrapeptide units affected the partitioning and retention to amuch lesser extent. Partition and modelling data also indicateda folding of inserted Trp and Ile tetrapeptide units, probablyto minimise their water contact. It was also investigated howto predict the partitioning of proteins in isoelectricPEG/phosphate aqueous two-phase systems.</p><p>The capture ofß-galactosidase from<i>E. coli</i>cell homogentate (50g DW/L) by metal chelatexpanded bed adsorption was studied. These experiments showedthat capture, with a certain degree of selectivity, andclarification of ß-galactosidase could be achieved from acell homogenate. However, a rather low recovery of about 35 %was obtained at a capacity of 0.25mg/mL of gel. Thus, severalparameters remain to be optimised like the load buffercomposition and the cell homogenate load.</p><p><b>Keywords:</b><i>E. coli</i>, aqueous two-phase systems, fusion proteins,hydrophobic interaction chromatography, expanded bedadsorption, ß-galactosidase, Klenow polymerase, Z-domain,peptide tags</p>
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Aktas, Gülsen Betül. "Application of dna binding protein tags as means for defined co-immobilization in biosensors." Doctoral thesis, Universitat Rovira i Virgili, 2017. http://hdl.handle.net/10803/458372.

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L’objectiu d’aquesta tesi doctoral és explorar la utilització de proteïnes d’unió al ADN en la generació i amplificació de senyal en biosensors. L’alta especificitat i afinitat d’aquestes proteïnes per les seves respectives seqüencies específiques de ADN de doble cadena (ADNdc) ha sigut utilitzada per desenvolupar un sistema d’immobilització que permet la co-immobilització de forma controlada de múltiples proteïnes. El sistema proposat està basat en la utilització d’aquestes proteïnes d’unió al ADN com a etiquetes de fusió de les proteïnes a immobilitzar i amb l’ús conjunt d’una molècula de ADNdc que fa la funció de plantilla per a la co-immobilització degut al posicionament de les seqüències de ADN que reconeixen específicament aquestes proteïnes d’unió al ADN. Aquest treball descriu la preparació i caracterització de dos conjugats universals d’enzim-proteïna d’unió al ADN i demostra el seu ús en la generació i amplificació de senyal en biosensors per a la detecció d’àcids nucleics i proteïnes. A més, també es mostra la idoneïtat d’aquestes proteïnes d’unió al ADN per immobilitzar directament molècules de ADN.<br>El objetivo de esta tesis doctoral es explorar la utilización de proteínas de unión al ADN en la generación y amplificación de señal en bionsensores. La alta especificidad y afinidad de estas proteínas por sus respectivas secuencias específicas de ADN de doble cadena (ADNdc) ha sido utilizada par a desarrollar un sistema de inmovilización que permite la co-inmovilización de forma controlada de múltiples proteínas. El sistema propuesto está basado en la utilización de estas proteínas de unión al ADN como etiquetas de fusión de las proteínas a inmovilizar y con el uso conjunto de una molécula de ADNdc que hace la función de plantilla para la co-inmovilización debido al posicionamiento de las secuencias de ADN que reconocen específicamente estas proteínas de unión al ADN. Este trabajo describe la preparación y caracterización de dos conjugados universales de enzima-proteína de unión al ADN y demuestra su uso en la generación y amplificación de señal en biosensores para la detección de ácidos nucleicos y proteínas. Además, también se muestra la idoneidad de estas proteínas de unión al ADN para inmovilizar directamente moléculas de ADN.<br>The objective of this doctoral thesis is to explore the use of DNA binding proteins in biosensors for signal generation and amplification. The specificity and high affinity that these proteins exhibit for their respective double stranded DNA (dsDNA) sequence was thus exploited in order to develop a protein immobilization technique that allows the controlled co-immobilization of several proteins. The proposed system is based on the utilization of these DNA binding proteins as fusion tags for the target proteins to be immobilized and the use of dsDNA as the template to direct the protein co-immobilization by specific positioning of the target DNA sequences recognized by the DNA binding proteins. The preparation and characterization of two novel universal enzyme-DNA binding protein conjugates is described and their use for signal generation and amplification in biosensors for the detection of nucleic acid and protein targets is demonstrated. In addition, the suitability of these DNA binding proteins to directly immobilize DNA molecules is also shown.
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Birchfield, Aaron, and Cecilia McIntosh. "Crystallization of a Flavonol-Specific 3-O Glucosyltransferase and Site-Directed Mutants from Grapefruit." Digital Commons @ East Tennessee State University, 2019. https://dc.etsu.edu/asrf/2019/schedule/175.

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Citrus fruits are some of the most widely consumed fruits in the world and contain significant levels of flavonoids, a category of plant secondary metabolites which control taste, color, plant defense, and overall marketability. In citrus and other plants, flavonoids are found in their glucosylated form. Glucosyltransferases (GT’s) are enzymes that add glucose to secondary metabolites like flavonoids. They make up a diverse class of enzymes ubiquitous throughout the plant and animal kingdoms. While many GT’s have been identified, they vary greatly in their structural identity, and their chemical properties make it such that only a small percentage of existing GT’s have been functionally characterized. Research on GT structure function relationships strengthens the reliability of genomic databases and makes significant contributions to the field of enzyme biotechnology. Bioenergy research and custom enzyme synthesis rely on GT structural data, making this research critical to the success of many promising current and future projects. A GT was isolated from grapefruit and was shown to glucosylate the flavonol class of flavonoids at the 3-OH position, called CP3GT. Subsequent analysis showed there are specific arrangements of amino-acids inside the catalytic cleft of CP3GT that likely account for its specificity with flavonols. These interactions are not fully understood and make CP3GT an excellent model for elucidating unique structure function relationships of a GT enzyme. X-ray crystallography is one of the best methods for structure determination that allows a 3D image of the protein in question to be resolved at the molecular level. This method has vast potential for advancing plant enzymology, yet to date only 6 plant glucosyltransferases have had their crystal structures solved. The structural similarities and complementary specificities that CP3GT shares with these crystallized GT’s make CP3GT an excellent candidate for crystallization. This research hypothesizes that there are unique structural features that give CP3GT its specificity, and that these features can be elucidated using x-ray crystallography. Wild type CP3GT and 3 recently characterized mutants are being prepared for crystallization. The crystallization of 3 CP3GT mutants in addition to wild type will compliment structure/function analysis by providing insight into how structural modifications can alter enzyme function. It is recommended that protein be in its native form for crystallization, thus a thrombin-cleavage site was inserted into WT CP3GT and 3 mutants to remove tags following purification. Some studies have suggested that the presence of tags alters enzyme activity, thus this presented the opportunity to test the effect of tags by assaying both native and tagged enzyme. Initial results showed that WT CP3GT treated with thrombin retained 70 percent activity after a 2-hour treatment at 4o C. Additional assays will be conducted to fully determine tag effects and will run concurrently with crystallization experiments
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Jayasinha, Arachchige Rajith Madushanka. "Development of New Paramagnetic Tags for Solid-State NMR Structural Studies of Natively Diamagnetic Proteins." The Ohio State University, 2014. http://rave.ohiolink.edu/etdc/view?acc_num=osu1388416184.

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Martin, Langdon James. "Development of lanthanide-binding tags (LBTs) as powerful and versatile peptides for use in studies of proteins and protein interactions." Thesis, Massachusetts Institute of Technology, 2008. http://hdl.handle.net/1721.1/43731.

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Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Chemistry, 2008.<br>This electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections.<br>Vita.<br>Includes bibliographical references.<br>To determine the function of proteins of interest, chemical biologists employ their full panoply of techniques, including X-ray crystallography and NMR spectroscopy for structural information, and luminescence spectroscopy to determine cellular localization and binding interactions. These techniques generally require a spectroscopic handle, and trivalent lanthanide ions (Ln3+) are protean in this regard: an ordered Ln3+ can have many uses. Paramagnetic lanthanide ions can be exploited to align biomolecules in a magnetic field, and the anomalous signal of any lanthanide ion may be used to obtain phase information from X-ray diffraction data. Most lanthanide ions are luminescent upon sensitization by an organic fluorophore; for example, Tb3+ may be sensitized by the side chain of the amino acid tryptophan. Ln3+ emission profiles are distinct and long lived, and therefore ideal for imaging and resonance energy transfer experiments. Lanthanide-binding tags (LBTs) are short peptide sequences developed to tightly and selectively chelate lanthanide ions. LBTs contain an appropriately placed tryptophan residue for sensitizing Tb3+ luminescence, and are composed entirely of encoded amino acids; incorporation at the genetic level into any protein of interest is thus facilitated. Subsequent expression of the tagged protein may be done using standard biochemical techniques, and the resultant protein contains a site for introducing an ordered lanthanide ion. Within this thesis is discussed the further optimization of LBTs for lanthanide affinity and structural stability. A combination of combinatorial peptide libraries and computational studies has resulted in the discovery of peptides that bind Tb3+ with dissociation constants of better than 20 nM.<br>(cont.) Furthermore, the concatenation of two LBT motifs has enabled the generation of so-called "double lanthanide-binding tags" (dLBTs). These slightly larger tags have additional advantages including the ability to bind two lanthanide ions, reduced mobility with respect to the tagged protein, and comparable or improved affinity for Ln3+ ions. Furthermore, since the lanthanide Gd3+ is a common handle for magnetic resonance imaging, progress has commenced to expand the utility of LBTs to include this type of experiment. Finally, LBT technology has been used to study the protein Calcineurin by uniquely modifying one calcium-binding loop to selectively bind and sensitize Tb3+.<br>by Langdon James Martin.<br>Ph.D.
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Woestenenk, Esmeralda A. "Protein production, characterization and structure determination in structural genomics." Doctoral thesis, KTH, Biotechnology, 2004. http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-29.

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<p>This thesis covers the process from expression of a heterologous gene in Escherichia coli to structure determination of a protein by nuclear magnetic resonance (NMR) spectroscopy. </p><p>The first part concerns structural genomics-related parallel screening studies on the effect of fusion tags (in particular the His tag) on protein solubility and the use of fusion tags in fast, parallel purification protocols intended for initial biophysical characterization of human proteins produced in E. coli. It was found that for most proteins the His tag has a negative influence on protein solubility. This influence appears to be more pronounced for our C-terminal His tag than for the N-terminal His tags used in this study. Moreover, high ratios of soluble per total protein do not always guarantee a high yield of soluble protein after purification, as different vector - target protein combinations result in large differences in host cell growth rates. Protein purification protocols for different fusion tags were developed that make it possible to express, purify and study structural properties of low concentration samples of 15N-labeled proteins in one or two days. </p><p>The second part of this thesis describes the assignment and solution structure determination of ribosomal protein L18 of Thermus thermophilus. The protein is a mixed α/β structure with two α-helices on one side of a four-stranded β-sheet. Comparison to RNA-bound L18 showed that the protein to a large extent adopts identical structures in free and bound states, with exception of the loop regions and the flexible N-terminus.</p><p><b>Keywords:</b> protein production, protein solubility, fusion tags, nuclear magnetic resonance, structure determination, ribosomal protein</p>
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Gomes, Cicera Maria. "Análise do transcriptoma do fígado da serpente Bothrops jararaca utilizando expressed sequences tags (ESTs)." Universidade de São Paulo, 2013. http://www.teses.usp.br/teses/disponiveis/87/87131/tde-12062013-092051/.

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Bothrops jararaca é uma das principais serpentes responsáveis por acidentes ofídicos em São Paulo. O efeito do envenenamento pode ser local ou sistêmico, os quais são mediados por uma variedade de componentes do veneno. Considerando que, em animais vertebrados, o fígado desempenha atividades metabólicas essenciais, além de ser o principal órgão responsável pela síntese de proteínas do plasma, a obtenção do transcriptoma deste é de extrema importância para o estudo destas proteínas. Assim, o objetivo deste trabalho foi analisar o perfil de expressão de RNA no fígado de B. jararaca. Para isto foram obtidas 1700 sequências nucleotídicas denominadas Expressed Sequences Tags (ESTs). As sequências de nucleotídeos foram reunidas em 260 contigs, que foram submetidos ao banco de dados NCBI GenBank usando os algorítimos Blastx e Blastn. dos transcritos tiveram hit com banco de dados NR enquanto 30,5% das ESTs não tiveram homologia. De acordo com a análise do Gene Ontology (GO), os transcritos foram designados para processo biológico, componente celular e função molecular. A maioria dos transcritos foram agrupados em processo biológico, distribuídos em processo metabólico, processo celular e regulação biológica. No entanto, as atividades de ligação proteica, catalítica e de atividade regulatória enzimática foram as principais categorias relacionadas à função molecular. A análise do componente celular apresentou maior número de transcritos envolvidos com a parte celular, região extracelular e restrito a membrana de organela. O maior grupo de transcritos foi relacionado a inibidores de metaloproteases, inibidores de serinoproteases e inibidores de PLA2. Estudos de expressão gênica de alguns alvos selecionados na biblioteca de cDNA de B. jararaca foram realizados para comparação da expressão entre serpentes jovens e adultas. Esses resultados fornecem dados que poderão auxiliar nos estudos filogenéticos entre as diferentes espécies de serpentes e investigar a diferença no padrão da expressão gênica, fornecendo dados importantes sobre a biologia desses animais, contribuindo assim para a elucidação da fisiologia desses animais. Além disso, será útil na identificação de moléculas que possam ser candidatas a alvos terapêuticos.<br>Bothrops jararaca is the main responsible for snake bites in São Paulo. There are both local and systemic envenomation effects, which are mediated by a variety of venom components. Considering that in vertebrate animals the liver is an important organ responsible for synthesis of plasma proteins, it would be valuable to get transcriptomic information about it. Thus, the aim of this work was to analyze expression profile at RNA level in B. jararaca liver. For this purpose, we sequenced 1700 Expressed Sequence Tags (ESTs) from a cDNA library of B. jararaca liver. Nucleotide sequences were assembled into 260 contigs, which were submitted to the GenBank NCBI database using BLASTX and BLASTN algorithms. Transcripts showed 43% hits with NR database while 30.5% of ESTs had no homology. According to Gene ontology (GO) analysis, transcripts were assigned for biological process, cellular component and molecular function. Majority of transcripts were classified in biological process category distributed in metabolic process, cellular processes and biological regulation, whereas binding and catalytic activities were the main category in molecular function. Cellular component analysis identified transcripts related to cell part, extracellular region and membrane-bounded organelle. The major group of transcripts was related to metalloproteinase inhibitors, followed by serine proteinase inhibitors and phospholipase A2 inhibitors. Studies of gene expression of some selected targets in the cDNA library of B. jararaca, by real time PCR were performed to compare expression in juvenile and adult snake specimens. Our results will help in studies of phylogenetic relationships between different snake species, and investigate differences in gene expression pattern. In addition, our findings are also helpful in the identification of active compounds for development of improved therapeutics for snake bites.
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Books on the topic "Protein Tags"

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Giannone, Richard J., and Andrew B. Dykstra, eds. Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2.

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Protein affinity tags: Methods and protocols. Humana Press, 2014.

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Naumann, Martin. Wende-Tage-Buch: Ein Tagebuch von der Wende bis zur Einheit. Militzke, 1998.

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Schorlemmer, Friedrich. Die Wende in Wittenberg: Ein persönlicher Rückblick auf 10 Jahre des Widerspruchs und auf die Tage des Umbruchs. Drei Kastanien, 1997.

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Miller, Lawrence W. Probes and Tags to Study Biomolecular Function: For Proteins, RNA, and Membranes. Wiley & Sons, Limited, John, 2008.

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Prof, Miller Lawrence W., ed. Probes and tags to study biomolecular function: For proteins, RNA, and membranes. Wiley-VCH Verlag, 2008.

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Miller, Lawrence W. Probes and Tags to Study Biomolecular Function: For Proteins, RNA, and Membranes. Wiley & Sons, Incorporated, John, 2008.

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Press, Mamova. Password Book with Tabs: Journal and Logbook to Protect Logins and Passwords Book with Alphabetical Tabs. Independently Published, 2020.

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Press, Mamova. Password Book with Tabs: Journal, Organizer, Logbook to Protect Logins and Passwords Book with Tabs, 105 Pages. Independently Published, 2020.

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Press, Mamova. Password Book with Tabs: Journal, Organizer to Protect Logins and Passwords with Alphabetical Tabs, Password Logbook for Men Women. Independently Published, 2020.

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Book chapters on the topic "Protein Tags"

1

Goodfellow, Ian, and Dalan Bailey. "Detection of Protein–Protein Interactions Using Tandem Affinity Purification." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_10.

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Molday, Laurie L., and Robert S. Molday. "1D4: A Versatile Epitope Tag for the Purification and Characterization of Expressed Membrane and Soluble Proteins." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_1.

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Faiola, Francesco, Arven Saunders, Baoyen Dang, and Jianlong Wang. "An Improved In Vivo Biotinylation Strategy Combined with FLAG and Antibody Based Approaches for Affinity Purification of Protein Complexes in Mouse Embryonic Stem Cells." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_11.

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Murayama, Takashi, and Takuya Kobayashi. "Purification of Recombinant Proteins with a Multifunctional GFP Tag." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_12.

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Schäffer, Ursula, Ralf Baumeister, and Ekkehard Schulze. "Targeted Purification of SnAvi-Tagged Proteins." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_13.

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Ma, Hanhui, Janel R. McLean, Kathleen L. Gould, and Dannel McCollum. "An Efficient Fluorescent Protein-Based Multifunctional Affinity Purification Approach in Mammalian Cells." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_14.

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Starokadomskyy, Petro, and Ezra Burstein. "Bimolecular Affinity Purification: A Variation of TAP with Multiple Applications." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_15.

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Asher, Wesley B., and Kara L. Bren. "Affinity Purification of Heme-Tagged Proteins." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_2.

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Wang, Dongmei, and Jiong Hong. "Purification of a Recombinant Protein with Cellulose-Binding Module 3 as the Affinity Tag." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_3.

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Coolbaugh, Michael J., and David W. Wood. "Purification of E. coli Proteins Using a Self-Cleaving Chitin-Binding Affinity Tag." In Protein Affinity Tags. Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1034-2_4.

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Conference papers on the topic "Protein Tags"

1

Shiguihara-Juarez, Pedro, Nils Murrugarra-Llerena, and Alneu de Andrade Lopes. "POS-tags features for Protein-Protein Interaction Extraction from Biomedical Articles." In 2018 IEEE XXV International Conference on Electronics, Electrical Engineering and Computing (INTERCON). IEEE, 2018. http://dx.doi.org/10.1109/intercon.2018.8526370.

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Lee, Guo-Hsing, Nai-Yu Chuang, Wen-Dar Lin, Chung-Der Hsiao, Hahn-Ming Lee, and Jan-Ming Ho. "E2D: A Novel Tool for Annotating Protein Domains in Expressed Sequence Tags." In 2006 IEEE Symposium on Computational Intelligence and Bioinformatics and Computational Biology. IEEE, 2006. http://dx.doi.org/10.1109/cibcb.2006.330967.

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Fei, Zhengcong. "Improving Tandem Mass Spectra Analysis with Hierarchical Learning." In Twenty-Ninth International Joint Conference on Artificial Intelligence and Seventeenth Pacific Rim International Conference on Artificial Intelligence {IJCAI-PRICAI-20}. International Joint Conferences on Artificial Intelligence Organization, 2020. http://dx.doi.org/10.24963/ijcai.2020/599.

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Abstract:
Tandem mass spectrometry is the most widely used technology to identify proteins in a complex biological sample, which produces a large number of spectra representative of protein subsequences named peptide. In this paper, we propose a hierarchical multi-stage framework, referred as DeepTag, to identify the peptide sequence for each given spectrum. Compared with the traditional one-stage generation, our sequencing model starts the inference with a selected high-confidence guiding tag and provides the complete sequence based on this guiding tag. Besides, we introduce a cross-modality refining module to asist the decoder focus on effective peaks and fine-tune with a reinforcement learning technique. Experiments on different public datasets demonstrate that our method achieves a new state-of-the-art performance in peptide identification task, leading to a marked improvement in terms of both precision and recall.
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Eggers, Christopher, Braeden Butler, Robin Hurst, et al. "Abstract 4013: A novel multifunctional protein tag enables simple and sensitive bioluminescent quantification of tagged proteins." In Proceedings: AACR Annual Meeting 2017; April 1-5, 2017; Washington, DC. American Association for Cancer Research, 2017. http://dx.doi.org/10.1158/1538-7445.am2017-4013.

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Incandela, J. "Top decay to lepton+jets: CDF B tags and cross section." In The 10th topical workshop on proton−antiproton collider physics. AIP, 1996. http://dx.doi.org/10.1063/1.49673.

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Nomura, Wataru, Nami Ohashi, Tetsuo Narumi, and Hirokazu Tamamura. "Tag-Probe System for Imaging of Intracellular Proteins." In The Twenty-Third American and the Sixth International Peptide Symposium. Prompt Scientific Publishing, 2013. http://dx.doi.org/10.17952/23aps.2013.174.

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Yoo, Yoon-Sik, Hyungkyu Lee, Boo-Geum Jung, HeaSook Park, Kiwon Kim, and Cheong Hee Park. "TAPS: Trust-based Access Control and Protect System." In 2019 International Conference on Platform Technology and Service (PlatCon). IEEE, 2019. http://dx.doi.org/10.1109/platcon.2019.8669414.

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Paul, Anna-Lisa, Trevor Murdoch, Evan J. Ferl, Howard G. Levine, and Robert J. Ferl. "The TAGES Imaging System: Optimizing a Green Fluorescent Protein Imaging System for Plants." In International Conference On Environmental Systems. SAE International, 2003. http://dx.doi.org/10.4271/2003-01-2477.

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Squicciarini, Anna Cinzia, Andrea Novelli, Dan Lin, Cornelia Caragea, and Haoti Zhong. "From Tag to Protect: A Tag-Driven Policy Recommender System for Image Sharing." In 2017 15th Annual Conference on Privacy, Security and Trust (PST). IEEE, 2017. http://dx.doi.org/10.1109/pst.2017.00047.

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Skubitz, Amy P. N., Somi Afiuni, Kristin L. M. Boylan, et al. "Abstract B34: Tandem Mass Tag 10-plex isobaric labeling of Pap test proteins: A novel method for the identification of ovarian cancer protein biomarkers by mass spectrometry." In Abstracts: AACR Special Conference: Advances in Ovarian Cancer Research: Exploiting Vulnerabilities; October 17-20, 2015; Orlando, FL. American Association for Cancer Research, 2016. http://dx.doi.org/10.1158/1557-3265.ovca15-b34.

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Reports on the topic "Protein Tags"

1

Svoisky, Peter V. Search for MSSM Higgs Boson Production in Proton Anti-Proton Collisions, with a Higgs Decaying into Taus. Office of Scientific and Technical Information (OSTI), 2008. http://dx.doi.org/10.2172/948183.

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Strang, Michael Allen. First observation of dijet events with an antiproton tag at √s = 1.96 TeV using the D0 Forward Proton Detector. Office of Scientific and Technical Information (OSTI), 2005. http://dx.doi.org/10.2172/15020143.

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