Search Results - "Jergic, Slobodan"

Single-molecule visualization of fast polymerase turnover in the bacterial replisome by Lewis, Jacob S, Spenkelink, Lisanne M, Jergic, Slobodan, Wood, Elizabeth A, Monachino, Enrico, Horan, Nicholas P, Duderstadt, Karl E, Cox, Michael M, Robinson, Andrew, Dixon, Nicholas E, van Oijen, Antoine M

“…The DNA replication machinery has been used as a road map to uncover design rules that enable DNA duplication with high efficiency and fidelity. Although the…”
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Spatial and temporal organization of RecA in the Escherichia coli DNA-damage response by Ghodke, Harshad, Paudel, Bishnu P, Lewis, Jacob S, Jergic, Slobodan, Gopal, Kamya, Romero, Zachary J, Wood, Elizabeth A, Woodgate, Roger, Cox, Michael M, van Oijen, Antoine M

“…The RecA protein orchestrates the cellular response to DNA damage via its multiple roles in the bacterial SOS response. Lack of tools that provide unambiguous…”
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Structural characterisation of the complete cycle of sliding clamp loading in Escherichia coli by Xu, Zhi-Qiang, Jergic, Slobodan, Lo, Allen T. Y., Pradhan, Alok C., Brown, Simon H. J., Bouwer, James C., Ghodke, Harshad, Lewis, Peter J., Tolun, Gökhan, Oakley, Aaron J., Dixon, Nicholas E.

“…Ring-shaped DNA sliding clamps are essential for DNA replication and genome maintenance. Clamps need to be opened and chaperoned onto DNA by clamp loader…”
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Nuclease dead Cas9 is a programmable roadblock for DNA replication by Whinn, Kelsey S., Kaur, Gurleen, Lewis, Jacob S., Schauer, Grant D., Mueller, Stefan H., Jergic, Slobodan, Maynard, Hamish, Gan, Zhong Yan, Naganbabu, Matharishwan, Bruchez, Marcel P., O’Donnell, Michael E., Dixon, Nicholas E., van Oijen, Antoine M., Ghodke, Harshad

“…Limited experimental tools are available to study the consequences of collisions between DNA-bound molecular machines. Here, we repurpose a catalytically…”
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Polymerase exchange on single DNA molecules reveals processivity clamp control of translesion synthesis by Kath, James E., Jergic, Slobodan, Heltzel, Justin M. H., Jacob, Deena T., Dixon, Nicholas E., Sutton, Mark D., Walker, Graham C., Loparo, Joseph J.

“…Translesion synthesis (TLS) by Y-family DNA polymerases alleviates replication stalling at DNA damage. Ring-shaped processivity clamps play a critical but…”
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Replisome speed determines the efficiency of the Tus−Ter replication termination barrier by Elshenawy, Mohamed M., Jergic, Slobodan, Xu, Zhi-Qiang, Sobhy, Mohamed A., Takahashi, Masateru, Oakley, Aaron J., Dixon, Nicholas E., Hamdan, Samir M.

“…The Tus– Ter termination site of Escherichia coli is not completely efficient in stopping DNA replication, with about half of replisomes bypassing this…”
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Single-molecule studies of fork dynamics in Escherichia coli DNA replication by van Oijen, Antoine M, Hamdan, Samir M, Tanner, Nathan A, Schaeffer, Patrick M, Loscha, Karin V, Dixon, Nicholas E, Jergic, Slobodan

“…We present single-molecule studies of the Escherichia coli replication machinery. We visualize individual E. coli DNA polymerase III (Pol III) holoenzymes…”
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Roquin binds microRNA-146a and Argonaute2 to regulate microRNA homeostasis by Srivastava, Monika, Duan, Guowen, Kershaw, Nadia J., Athanasopoulos, Vicki, Yeo, Janet H. C., Ose, Toyoyuki, Hu, Desheng, Brown, Simon H. J., Jergic, Slobodan, Patel, Hardip R., Pratama, Alvin, Richards, Sashika, Verma, Anil, Jones, E. Yvonne, Heissmeyer, Vigo, Preiss, Thomas, Dixon, Nicholas E., Chong, Mark M. W., Babon, Jeffrey J., Vinuesa, Carola G.

“…Roquin is an RNA-binding protein that prevents autoimmunity and inflammation via repression of bound target mRNAs such as inducible costimulator ( Icos ). When…”
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A direct proofreader-clamp interaction stabilizes the Pol III replicase in the polymerization mode by Jergic, Slobodan, Horan, Nicholas P, Elshenawy, Mohamed M, Mason, Claire E, Urathamakul, Thitima, Ozawa, Kiyoshi, Robinson, Andrew, Goudsmits, Joris M H, Wang, Yao, Pan, Xuefeng, Beck, Jennifer L, van Oijen, Antoine M, Huber, Thomas, Hamdan, Samir M, Dixon, Nicholas E

“…Processive DNA synthesis by the αεθ core of the Escherichia coli Pol III replicase requires it to be bound to the β 2 clamp via a site in the α polymerase…”
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Strand separation establishes a sustained lock at the Tus–Ter replication fork barrier by Berghuis, Bojk A, Dulin, David, Xu, Zhi-Qiang, van Laar, Theo, Cross, Bronwen, Janissen, Richard, Jergic, Slobodan, Dixon, Nicholas E, Depken, Martin, Dekker, Nynke H

“…Tus protein bound to Ter sites on circular bacterial chromosomes provides a way to avoid random crashes of opposing replication forks. DNA-unzipping…”
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Defining the Structural Basis of Human Plasminogen Binding by Streptococcal Surface Enolase by Cork, Amanda J., Jergic, Slobodan, Hammerschmidt, Sven, Kobe, Bostjan, Pancholi, Vijay, Benesch, Justin L.P., Robinson, Carol V., Dixon, Nicholas E., Aquilina, J. Andrew, Walker, Mark J.

“…The flesh-eating bacterium group A Streptococcus (GAS) binds and activates human plasminogen, promoting invasive disease. Streptococcal surface enolase (SEN),…”
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Cell-free protein synthesis in an autoinduction system for NMR studies of protein-protein interactions by Ozawa, Kiyoshi, Jergic, Slobodan, Crowther, Jeffrey A, Thompson, Phillip R, Wijffels, Gene, Otting, Gottfried, Dixon, Nicholas A

“…Cell-free protein synthesis systems provide facile access to proteins in a nascent state that enables formation of soluble, native protein-protein complexes…”
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Measurement of dissociation constants of high-molecular weight protein-protein complexes by transferred ¹⁵N-relaxation by Su, Xun-Cheng, Jergic, Slobodan, Ozawa, Kiyoshi, Burns, Nicolas Dale, Dixon, Nicholas E, Otting, Gottfried

“…The use of ¹⁵N-relaxation data for determination of the dissociation constant of a protein-protein complex is proposed for the situation where a ¹⁵N-labeled…”
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DNA replication is the target for the antibacterial effects of nonsteroidal anti-inflammatory drugs by Yin, Zhou, Wang, Yao, Whittell, Louise R, Jergic, Slobodan, Liu, Michael, Harry, Elizabeth, Dixon, Nicholas E, Kelso, Michael J, Beck, Jennifer L, Oakley, Aaron J

“…Evidence suggests that some nonsteroidal anti-inflammatory drugs (NSAIDs) possess antibacterial properties with an unknown mechanism. We describe the in vitro…”
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Selective loading and processing of prespacers for precise CRISPR adaptation by Kim, Sungchul, Loeff, Luuk, Colombo, Sabina, Jergic, Slobodan, Brouns, Stan J. J., Joo, Chirlmin

“…CRISPR–Cas immunity protects prokaryotes against invading genetic elements 1 . It uses the highly conserved Cas1–Cas2 complex to establish inheritable memory…”
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Recycling of single-stranded DNA-binding protein by the bacterial replisome by Spenkelink, Lisanne M, Lewis, Jacob S, Jergic, Slobodan, Xu, Zhi-Qiang, Robinson, Andrew, Dixon, Nicholas E, van Oijen, Antoine M

“…Abstract Single-stranded DNA-binding proteins (SSBs) support DNA replication by protecting single-stranded DNA from nucleolytic attack, preventing intra-strand…”
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Nanometer-Scale Distance Measurements in Proteins Using Gd3+ Spin Labeling by Potapov, Alexey, Yagi, Hiromasa, Huber, Thomas, Jergic, Slobodan, Dixon, Nicholas E, Otting, Gottfried, Goldfarb, Daniella

“…Methods for measuring nanometer-scale distances between specific sites in proteins are essential for analysis of their structure and function. In this work we…”
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Single-molecule visualization of sequence-specific RNA binding by a designer PPR protein by Marzano, Nicholas, Johnston, Brady, Paudel, Bishnu P, Schmidberger, Jason, Jergic, Slobodan, Böcking, Till, Agostino, Mark, Small, Ian, van Oijen, Antoine M, Bond, Charles S

“…Abstract Pentatricopeptide repeat proteins (PPR) are a large family of modular RNA-binding proteins, whereby each module can be modified to bind to a specific…”
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DnaB helicase dynamics in bacterial DNA replication resolved by single-molecule studies by Spinks, Richard R, Spenkelink, Lisanne M, Stratmann, Sarah A, Xu, Zhi-Qiang, Stamford, N Patrick J, Brown, Susan E, Dixon, Nicholas E, Jergic, Slobodan, van Oijen, Antoine M

“…Abstract In Escherichia coli, the DnaB helicase forms the basis for the assembly of the DNA replication complex. The stability of DnaB at the replication fork…”
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Single-molecule visualization of stalled replication-fork rescue by the Escherichia coli Rep helicase by Whinn, Kelsey S, Xu, Zhi-Qiang, Jergic, Slobodan, Sharma, Nischal, Spenkelink, Lisanne M, Dixon, Nicholas E, van Oijen, Antoine M, Ghodke, Harshad

“…Abstract Genome duplication occurs while the template DNA is bound by numerous DNA-binding proteins. Each of these proteins act as potential roadblocks to the…”
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