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Relevant bibliographies by topics / Sliding clamp

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Journal articles
Dissertations / Theses
Book chapters
Conference papers

Academic literature on the topic 'Sliding clamp'

Author: Grafiati

Published: 4 June 2021

Last updated: 1 February 2022

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Journal articles on the topic "Sliding clamp"

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Jeruzalmi, David, Mike O'Donnell, and John Kuriyan. "Clamp loaders and sliding clamps." Current Opinion in Structural Biology 12, no. 2 (2002): 217–24. http://dx.doi.org/10.1016/s0959-440x(02)00313-5.

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López de Saro, Francisco, Roxana E. Georgescu, Frank Leu, and Mike O'Donnell. "Protein trafficking on sliding clamps." Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences 359, no. 1441 (2004): 25–30. http://dx.doi.org/10.1098/rstb.2003.1361.

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The sliding clamps of chromosomal replicases are acted upon by both the clamp loader and DNA polymerase. Several other proteins and polymerases also interact with the clamp. These proteins bind the clamp at the same spot and use it in sequential fashion. First the clamp loader must bind the clamp in order to load it onto DNA, but directly thereafter the clamp loader must clear away from the clamp so it can be used by the replicative DNA polymerase. At the end of replication, the replicase is ejected from the clamp, which presumably allows the clamp to interact with yet other proteins after its

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Acharya, Sandesh, Amol Dahal, and Hitesh Kumar Bhattarai. "Evolution and origin of sliding clamp in bacteria, archaea and eukarya." PLOS ONE 16, no. 8 (2021): e0241093. http://dx.doi.org/10.1371/journal.pone.0241093.

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The replication of DNA is an essential process in all domains of life. A protein often involved in replication is the sliding clamp. The sliding clamp encircles the DNA and helps replicative polymerase stay attached to the replication machinery increasing the processivity of the polymerase. In eukaryotes and archaea, the sliding clamp is called the Proliferating Cell Nuclear Antigen (PCNA) and consists of two domains. This PCNA forms a trimer encircling the DNA as a hexamer. In bacteria, the structure of the sliding clamp is highly conserved, but the protein itself, called beta clamp, contains

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Kelch, B. A., D. L. Makino, M. O'Donnell, and J. Kuriyan. "How a DNA Polymerase Clamp Loader Opens a Sliding Clamp." Science 334, no. 6063 (2011): 1675–80. http://dx.doi.org/10.1126/science.1211884.

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Douma, Lauren G., Kevin K. Yu, Jennifer K. England, Marcia Levitus, and Linda B. Bloom. "Mechanism of opening a sliding clamp." Nucleic Acids Research 45, no. 17 (2017): 10178–89. http://dx.doi.org/10.1093/nar/gkx665.

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Bowman, Gregory D., Mike O'Donnell, and John Kuriyan. "Structural analysis of a eukaryotic sliding DNA clamp–clamp loader complex." Nature 429, no. 6993 (2004): 724–30. http://dx.doi.org/10.1038/nature02585.

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Cho, Won-Ki, Slobodan Jergic, Daehyung Kim, Nicholas E. Dixon, and Jong-Bong Lee. "Loading Dynamics of a Sliding DNA Clamp." Angewandte Chemie 126, no. 26 (2014): 6886–89. http://dx.doi.org/10.1002/ange.201403063.

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Cho, Won-Ki, Slobodan Jergic, Daehyung Kim, Nicholas E. Dixon, and Jong-Bong Lee. "Loading Dynamics of a Sliding DNA Clamp." Angewandte Chemie International Edition 53, no. 26 (2014): 6768–71. http://dx.doi.org/10.1002/anie.201403063.

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Georgescu, Roxana E., Seung-Sup Kim, Olga Yurieva, John Kuriyan, Xiang-Peng Kong, and Mike O'Donnell. "Structure of a Sliding Clamp on DNA." Cell 132, no. 1 (2008): 43–54. http://dx.doi.org/10.1016/j.cell.2007.11.045.

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Torgov, Michael Y., Deanna M. Janzen, and Michael K. Reddy. "Efficiency and Frequency of Translational Coupling between the Bacteriophage T4 Clamp Loader Genes." Journal of Bacteriology 180, no. 17 (1998): 4339–43. http://dx.doi.org/10.1128/jb.180.17.4339-4343.1998.

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ABSTRACT The bacteriophage T4 DNA polymerase holoenzyme is composed of the core polymerase, gene product 43 (gp43), in association with the “sliding clamp” of the T4 system, gp45. Sliding clamps are the processivity factors of DNA replication systems. The T4 sliding clamp comes to encircle DNA via the “clamp loader” activity inherent in two other T4 proteins: 44 and 62. These proteins assemble into a pentameric complex with a precise 4:1 stoichiometry of proteins 44 and 62. Previous work established that T4 genes 44 and62, which are directly adjacent on polycistronic mRNA molecules, are—to som

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Dissertations / Theses on the topic "Sliding clamp"

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Duffy, Caroline M. "Structural Mechanisms of the Sliding Clamp and Sliding Clamp Loader: Insights into Disease and Function: A Dissertation." eScholarship@UMMS, 2007. http://escholarship.umassmed.edu/gsbs_diss/844.

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Chromosomal replication is an essential process in all life. This dissertation highlights regulatory roles for two critical protein complexes at the heart of the replication fork: 1) the sliding clamp, the major polymerase processivity factor, and 2) the sliding clamp loader, a spiral-shaped AAA+ ATPase, which loads the clamp onto DNA. The clamp is a promiscuous binding protein that interacts with at least 100 binding partners to orchestrate many processes on DNA, but spatiotemporal regulation of these binding interactions is unknown. Remarkably, a recent disease-causing mutant of the sliding

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Duffy, Caroline M. "Structural Mechanisms of the Sliding Clamp and Sliding Clamp Loader: Insights into Disease and Function: A Dissertation." eScholarship@UMMS, 2016. https://escholarship.umassmed.edu/gsbs_diss/844.

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Chromosomal replication is an essential process in all life. This dissertation highlights regulatory roles for two critical protein complexes at the heart of the replication fork: 1) the sliding clamp, the major polymerase processivity factor, and 2) the sliding clamp loader, a spiral-shaped AAA+ ATPase, which loads the clamp onto DNA. The clamp is a promiscuous binding protein that interacts with at least 100 binding partners to orchestrate many processes on DNA, but spatiotemporal regulation of these binding interactions is unknown. Remarkably, a recent disease-causing mutant of the sliding

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Li, Jian. "Mechanism of DNA Homologous Recombination through Studies of DNA Sliding Clamps, Clamp Loaders, and DNA Polymerases." Ohio University / OhioLINK, 2013. http://rave.ohiolink.edu/etdc/view?acc_num=ohiou1374835449.

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Wong, Kevin Wai-Yuen. "Protein-protein interactions in the sliding clamp mediated activation of T4 late transcription /." Diss., Connect to a 24 p. preview or request complete full text in PDF format. Access restricted to UC campuses, 2000. http://wwwlib.umi.com/cr/ucsd/fullcit?p9987540.

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Beattie, Thomas R. "The molecular biology of DNA replication in the archaeon Sulfolobus solfataricus." Thesis, University of Oxford, 2012. http://ora.ox.ac.uk/objects/uuid:99d668a5-2d7a-4c7f-a1f8-b514e699347e.

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DNA replication is essential for the propagation of all living organisms. The ability of a cell to accurately duplicate its entire genome is dependent upon the activity of numerous proteins. Identifying the molecular mechanisms by which these proteins act, and determining how they are physically and functionally coordinated at sites of active DNA replication, is central to understanding this essential cellular process. Archaea possess a DNA replication machinery which is ancestral to the one present in eukaryotes, and thus these organisms serve as simplified model systems for understanding the

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Mudhivarthi, Subrahmanya. "Dry Sliding Tribological Characteristics of Hard, Flat Materials with Low Surface Roughness." [Tampa, Fla.] : University of South Florida, 2003. http://purl.fcla.edu/fcla/etd/SFE0000197.

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"Investigating Dynamics Using Three Systems: Cy3 on DNA, ME1 Heterodimers, and DNA Processivity Clamps." Doctoral diss., 2015. http://hdl.handle.net/2286/R.I.29722.

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abstract: Biophysical techniques have been increasingly applied toward answering biological questions with more precision. Here, three different biological systems were studied with the goal of understanding their dynamic differences, either conformational dynamics within the system or oligomerization dynamics between monomers. With Cy3 on the 5' end of DNA, the effects of changing the terminal base pair were explored using temperature-dependent quantum yields. It was discovered, in combination with simulations, that a terminal thymine base has the weakest stacking interactions with the Cy3

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"Studying the Solution Behavior of DNA and DNA Sliding Clamps Using Various Fluorescence Techniques." Doctoral diss., 2013. http://hdl.handle.net/2286/R.I.17928.

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abstract: Solution conformations and dynamics of proteins and protein-DNA complexes are often difficult to predict from their crystal structures. The crystal structure only shows a snapshot of the different conformations these biological molecules can have in solution. Multiple different conformations can exist in solution and potentially have more importance in the biological activity. DNA sliding clamps are a family of proteins with known crystal structures. These clamps encircle the DNA and enable other proteins to interact more efficiently with the DNA. Eukaryotic PCNA and prokaryotic &bet

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Book chapters on the topic "Sliding clamp"

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O’donnell, M., J. Kuriyan, X. P. Kong, P. T. Stukenberg, R. Onrust, and N. Yao. "The β Sliding Clamp of E. coli DNA Polymerase III Holoenzyme Balances Opposing Functions." In Nucleic Acids and Molecular Biology. Springer Berlin Heidelberg, 1994. http://dx.doi.org/10.1007/978-3-642-78666-2_11.

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"Sliding Clamp." In Encyclopedia of Genetics, Genomics, Proteomics and Informatics. Springer Netherlands, 2008. http://dx.doi.org/10.1007/978-1-4020-6754-9_15751.

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Marzahn, M. R., and L. B. Bloom. "Sliding Clamps in DNA Replication: Escherichia coli β-Clamp and PCNA Structure." In Encyclopedia of Biological Chemistry. Elsevier, 2013. http://dx.doi.org/10.1016/b978-0-12-378630-2.00442-4.

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Marzahn, Melissa R., and Linda B. Bloom. "Sliding Clamps in DNA Replication: Escherichia coli β-Clamp and PCNA Structure." In Reference Module in Life Sciences. Elsevier, 2020. http://dx.doi.org/10.1016/b978-0-12-819460-7.00054-2.

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Goedken, Eric R., and John Kuriyan. "Sliding Clamps in DNA Replication: E. coli β-Clamp and PCNA Structure." In Encyclopedia of Biological Chemistry. Elsevier, 2004. http://dx.doi.org/10.1016/b0-12-443710-9/00182-4.

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Turner, Jennifer, and Mike O'Donnell. "[33] Cycling of Escherichia coli DNA polymerase III from one sliding clamp to another: Model for lagging strand." In Methods in Enzymology. Elsevier, 1995. http://dx.doi.org/10.1016/0076-6879(95)62035-4.

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Shamoo, Yousif, and Thomas A. Steitz. "Building a Replisome from Interacting Pieces: Sliding Clamp Complexed to a Peptide from DNA Polymerase and a Polymerase Editing Complex." In Structural Insights into Gene Expression and Protein Synthesis. WORLD SCIENTIFIC, 2020. http://dx.doi.org/10.1142/9789811215865_0036.

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"Regulation of Interactions with Sliding Clamps During DNA Replication and Repair." In Advances in Genome Science: Changing Views on Living Organisms, edited by Francisco J. López de Saro. BENTHAM SCIENCE PUBLISHERS, 2013. http://dx.doi.org/10.2174/9781608051298113010015.

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Conference papers on the topic "Sliding clamp"

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Rajabpour, Leila, and Alireza Barzegar. "Design of improved fuzzy sliding mode controller for a reduced-order averaged active clamp DC-DC converter." In 2016 7th IEEE Control and System Graduate Research Colloquium (ICSGRC). IEEE, 2016. http://dx.doi.org/10.1109/icsgrc.2016.7813291.

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Nassar, Sayed A., Payam H. Matin, and Gary C. Barber. "Thread Friction Torque in Bolted Joints." In ASME/JSME 2004 Pressure Vessels and Piping Conference. ASMEDC, 2004. http://dx.doi.org/10.1115/pvp2004-2633.

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In this paper, formulas are developed for the calculation of the effective thread friction radius in fasteners, in order to determine the thread friction torque component. Results provided by these formulas are compared with those given by current practice that uses the average value of the minor and major thread radii. It is well known that the torque-tension relationship in threaded fastener applications is highly sensitive to the friction torque components: between threads, and under the turning fastener head or nut. Even moderate variations or inaccuracies in determining the friction torqu

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McDonald, Sean, Hadi Suroor, Jim Malachowski, Qi Wang, and Xinhai Qi. "Analysis of Subsea Foundations Subjected to Significant Torsion." In ASME 2014 33rd International Conference on Ocean, Offshore and Arctic Engineering. American Society of Mechanical Engineers, 2014. http://dx.doi.org/10.1115/omae2014-24192.

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The interest in the adequacy of shallow foundations to withstand the forces in the subsea realm is growing. Subsea structures such as PLETs and PLEMs often experience significant torsion loads in addition to vertical, horizontal and moment loads which are typically supported by shallow foundations. In this paper, the interactions between torsional and sliding loads for shallow foundations on sand were evaluated using available analytical methods as well as by a comprehensive 3-dimensional finite element analysis (FEA). The calculated pure sliding and pure torsional resistances of un-skirted mu

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Tekes, Ayse, Kevin McFall, Franklin Woods, and Alexander Bryant. "Adjustable Compliant Mechanism Load Deflection Test Bench Design." In ASME 2018 Dynamic Systems and Control Conference. American Society of Mechanical Engineers, 2018. http://dx.doi.org/10.1115/dscc2018-8943.

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Two adjustable compliant mechanism load deflection test benches are presented in this study. Both test bench mechanisms enable testing the deflection of flexible links or mechanisms. The modularity of the designs provides to test various link forms such as fixed-fixed and pinned-pinned joints. The load deflection test benches consist of a linear actuator, an amplifier rod, a linear rail and a sliding car. The measurement setup is equipped with force and displacement sensors for the linear actuator, various clamps to attach the compliant member, and machine vision software to measure member def

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Takeuchi, Takaaki, Tomoaki Utsunomiya, Koji Gotoh, and Iku Sato. "Quantitative Wear Estimation for Floating Structures by Using 3-D Geometry of Mooring Chain." In ASME 2020 39th International Conference on Ocean, Offshore and Arctic Engineering. American Society of Mechanical Engineers, 2020. http://dx.doi.org/10.1115/omae2020-18409.

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Abstract For reducing the maintenance cost of floating offshore wind turbine structures, it is necessary to establish a quantitative wear estimation method for the mooring chains. In this paper, attempts have been made to improve the accuracy of the estimation method in terms of the mooring chain model. These investigations were performed about a spar-type floater moored with three catenary mooring lines at Goto, Nagasaki prefecture, Japan. Up to now, the mass-spring model had been used for the mooring chain in response analysis and the relative angle between two spring lines was considered as

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