Distinctive effects of domain deletions on the manganese-dependent DNA polymerase and DNA phosphorylase activities of Mycobacterium smegmatis polynucleotide phosphorylase. [PDF]
Biochemistry, 2013 Unciuleac MC, Shuman S.
europepmc +3 more sources
Dependence of the nature of the Holstein polaron motion in a polynucleotide chain subjected to a constant electric field on the initial polaron state and the parameters of the chain [PDF]
, 2021 In this work, we consider the motion of a polaron in a polynucleotide Holstein molecular chain in a constant electric field. It is shown that the character of the polaron motion in the chain depends not only on the chosen parameters of the chain, but also on the initial distribution of the charge along the chain.
arxiv +1 more source
An onset model of mutually catalytic self-replicative systems formed by an assembly of polynucleotides [PDF]
, 2023 Self-replicability is the unique attribute observed in all the living organisms and the question how the life was physically initiated could be equivalent to the question how self-replicating informative polymers were formed in the abiotic material world.
arxiv +1 more source
Driven translocation of a polynucleotide chain through a nanopore--A continuous time Monte-Carlo study [PDF]
Physical Review E74, 011911 (2006), 2006 Using continuous time Monte-Carlo method we simulated the translocation of a polynucleotide chain driven through a nanopore by an electric field. We have used two models of driven diffusion due to the electric field. The chain may have strong interaction with the pore, and depends on which end of the chain first enters the pore.
arxiv +1 more source
Scientific Reports, 2023 A mutant deficient in polynucleotide phosphorylase (PNPase) activity was previously constructed in Enterococcus faecalis 14; a strain producing a leaderless two-peptide enterocin DD14 (EntDD14).
Rabia Ladjouzi +3 more
doaj +1 more source
Network Analysis of Biochemical Logic for Noise Reduction and Stability: A System of Three Coupled Enzymatic AND Gates [PDF]
J. Phys. Chem. B 113, 5301--5310 (2009), 2008 We develop an approach aimed at optimizing the parameters of a network of biochemical logic gates for reduction of the "analog" noise buildup. Experiments for three coupled enzymatic AND gates are reported, illustrating our procedure. Specifically, starch - one of the controlled network inputs - is converted to maltose by beta-amylase.
arxiv +1 more source
Microorganisms, 2021 Escherichia coli C is a strong biofilm producer in comparison to E. coli K-12 laboratory strains due to higher expression of the pgaABCD operon encoding the enzymes for the biosynthesis of the extracellular polysaccharide poly-β-1,6-N-acetylglucosamine ...
Thomas Carzaniga +5 more
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Virus Replication as a Phenotypic Version of Polynucleotide Evolution [PDF]
Bulletin of Mathematical Biology, April 2013, Volume 75, Issue 4,
pp 602-628, 2012 In this paper we revisit and adapt to viral evolution an approach based on the theory of branching process advanced by Demetrius, Schuster and Sigmund ("Polynucleotide evolution and branching processes", Bull. Math. Biol. 46 (1985) 239-262), in their study of polynucleotide evolution.
arxiv +1 more source
Cell Reports, 2015 Oocyte factors not only drive somatic cell nuclear transfer reprogramming but also augment the efficiency and quality of induced pluripotent stem cell (iPSC) reprogramming.
Swea-Ling Khaw +4 more
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Translocation of structured polynucleotides through nanopores [PDF]
Physical Biology 1 (2004) 19-26, 2003 We investigate theoretically the translocation of structured RNA/DNA molecules through narrow pores which allow single but not double strands to pass. The unzipping of basepaired regions within the molecules presents significant kinetic barriers for the translocation process.
arxiv +1 more source