Single-Molecule Analysis of Replication Protein A–DNA Interactions

Author(s):  
Fletcher E. Bain ◽  
Laura A. Fischer ◽  
Ran Chen ◽  
Marc S. Wold
PLoS ONE ◽  
2014 ◽  
Vol 9 (2) ◽  
pp. e87922 ◽  
Author(s):  
Bryan Gibb ◽  
Ling F. Ye ◽  
Stephanie C. Gergoudis ◽  
YoungHo Kwon ◽  
Hengyao Niu ◽  
...  

Sensors ◽  
2014 ◽  
Vol 14 (3) ◽  
pp. 5174-5182 ◽  
Author(s):  
Shunsuke Takahashi ◽  
Shohei Kawasaki ◽  
Hidefumi Miyata ◽  
Hirofumi Kurita ◽  
Takeshi Mizuno ◽  
...  

eLife ◽  
2020 ◽  
Vol 9 ◽  
Author(s):  
Zhenheng Qin ◽  
Lulu Bi ◽  
Xi-Miao Hou ◽  
Siqi Zhang ◽  
Xia Zhang ◽  
...  

BLM is a multifunctional helicase that plays critical roles in maintaining genome stability. It processes distinct DNA substrates, but not nicked DNA, during many steps in DNA replication and repair. However, how BLM prepares itself for diverse functions remains elusive. Here, using a combined single-molecule approach, we find that a high abundance of BLMs can indeed unidirectionally unwind dsDNA from a nick when an external destabilizing force is applied. Strikingly, human replication protein A (hRPA) not only ensures that limited quantities of BLMs processively unwind nicked dsDNA under a reduced force but also permits the translocation of BLMs on both intact and nicked ssDNAs, resulting in a bidirectional unwinding mode. This activation necessitates BLM targeting on the nick and the presence of free hRPAs in solution whereas direct interactions between them are dispensable. Our findings present novel DNA unwinding activities of BLM that potentially facilitate its function switching in DNA repair.


2014 ◽  
Vol 106 (2) ◽  
pp. 274a ◽  
Author(s):  
Bryan Gibb ◽  
Ling F. Ye ◽  
Stephanie C. Gergoudis ◽  
YoungHo Kwon ◽  
Hengyao Niu ◽  
...  

2020 ◽  
Vol 48 (7) ◽  
pp. 3657-3677 ◽  
Author(s):  
Nichodemus O Onwubiko ◽  
Angela Borst ◽  
Suraya A Diaz ◽  
Katharina Passkowski ◽  
Felicia Scheffel ◽  
...  

Abstract DNA replication is a central process in all living organisms. Polyomavirus DNA replication serves as a model system for eukaryotic DNA replication and has considerably contributed to our understanding of basic replication mechanisms. However, the details of the involved processes are still unclear, in particular regarding lagging strand synthesis. To delineate the complex mechanism of coordination of various cellular proteins binding simultaneously or consecutively to DNA to initiate replication, we investigated single-stranded DNA (ssDNA) interactions by the SV40 large T antigen (Tag). Using single molecule imaging by atomic force microscopy (AFM) combined with biochemical and spectroscopic analyses we reveal independent activity of monomeric and oligomeric Tag in high affinity binding to ssDNA. Depending on ssDNA length, we obtain dissociation constants for Tag-ssDNA interactions (KD values of 10–30 nM) that are in the same order of magnitude as ssDNA binding by human replication protein A (RPA). Furthermore, we observe the formation of RPA-Tag-ssDNA complexes containing hexameric as well as monomeric Tag forms. Importantly, our data clearly show stimulation of primase function in lagging strand Okazaki fragment synthesis by monomeric Tag whereas hexameric Tag inhibits the reaction, redefining DNA replication initiation on the lagging strand.


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