Chromosomal DNA Replication: On Replicases, Replisomes, and Bidirectional Replication Factories

Egel, Richard

doi:10.1007/7050_012

Cited by 3 publications

(1 citation statement)

References 37 publications

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“…DNAP cannot initiate replication on its own and requires priming by another enzyme called primase, which we have already described above. Thus, DdDPs alone cannot replicate the genome; together with DNA clamp and clamp loader, DNA helicase and primase, it forms a large multi-component complex machinery which is often referred to as the replisome [1585,1586,1587,1588,1589,1590,1591,1592,1593,1594,1595,1596,1597,1598,1599,1600,1601]. How does the DNAP coordinate its motion with that of the helicase?…”

Section: Replisome: Coordination Of Machines Within a Machinementioning

confidence: 99%

Stochastic mechano-chemical kinetics of molecular motors: a multidisciplinary enterprise from a physicist's perspective

Chowdhury

2012

Preprint

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A molecular motor is made of either a single macromolecule or a macromolecular complex. Just like their macroscopic counterparts, molecular motors "transduce" input energy into mechanical work. All the nanomotors considered here operate under isothermal conditions far from equilibrium. Moreover, one of the possible mechanisms of energy transduction, called Brownian ratchet, does not even have any macroscopic counterpart. But, molecular motor is not synonymous with Brownian ratchet; a large number of molecular motors execute a noisy power stroke, rather than operating as Brownian ratchet. We review not only the structural design and stochastic kinetics of individual single motors, but also their coordination, cooperation and competition as well as the assembly of multimodule motors in various intracellular kinetic processes. Although all the motors considered here execute mechanical movements, efficiency and power output are not necessarily good measures of performance of some motors. Among the intracellular nano-motors, we consider the porters, sliders and rowers, pistons and hooks, exporters, importers, packers and movers as well as those that also synthesize, manipulate and degrade "macromolecules of life". We review mostly the quantitative models for the kinetics of these motors. We also describe several of those motordriven intracellular stochastic processes for which quantitative models are yet to be developed. In part I, we discuss mainly the methodology and the generic models of various important classes of molecular motors. In part II, we review many specific examples emphasizing the unity of the basic mechanisms as well as diversity of operations arising from the differences in their detailed structure and kinetics. Multi-disciplinary research is presented here from the perspective of physicists.

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Section: Replisome: Coordination Of Machines Within a Machinementioning

confidence: 99%

Stochastic mechano-chemical kinetics of molecular motors: a multidisciplinary enterprise from a physicist's perspective

Chowdhury

2012

Preprint

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Progress Towards the Anatomy of the Eukaryotic DNA Replication Fork

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Cell cycle‐dependent formation of Cdc45–Claspin complexes in human cells is compromized by UV‐mediated DNA damage

et al. 2013

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The replication factor Cdc45 has essential functions in the initiation and elongation steps of eukaryotic DNA replication and plays an important role in the intra-S-phase checkpoint. Its interactions with other replication proteins during the cell cycle and after intra-S-phase checkpoint activation are only partially characterized. In the present study, we show that the C terminal part of Cdc45 may mediate its interactions with Claspin. The interactions of human Cdc45 with the three replication factors Claspin, replication protein A and DNA polymerase d are maximal during the S phase. Following UVC-induced DNA damage, Cdc45-Claspin complex formation is reduced, whereas the binding of Cdc45 to replication protein A is not affected. We also show that treatment of cells with UCN-01 and phosphatidylinositol 3-kinase-like kinase inhibitors does not rescue the UV-induced destabilization of Cdc45-Claspin interactions, suggesting that the loss of the interaction between Cdc45 and Claspin occurs upstream of ataxia telangiectasia and Rad 3-related activation in the intra-S-phase checkpoint.

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Chromosomal DNA Replication: On Replicases, Replisomes, and Bidirectional Replication Factories

Cited by 3 publications

References 37 publications

Stochastic mechano-chemical kinetics of molecular motors: a multidisciplinary enterprise from a physicist's perspective

Stochastic mechano-chemical kinetics of molecular motors: a multidisciplinary enterprise from a physicist's perspective

Progress Towards the Anatomy of the Eukaryotic DNA Replication Fork

Cell cycle‐dependent formation of Cdc45–Claspin complexes in human cells is compromized by UV‐mediated DNA damage

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