Replication fidelity

Yang W, Shen C, Ji Q, An H, Wang J, Liu Q, Zhang Z (2009) Food storage material silver nanoparticles interfere with DNA replication fidelity and bind with DNA. Nanotechnology 20 085102... 

Excellent summary of the molecular basis of replication fidelity by a DNA polymerase—base-pair geometry as well as hydrogen bonding. 

Modrich, P. Lahue, R. (1996) Mismatch repair in replication fidelity, genetic recombination, and cancer biology. Annu. Rev. Biochem. 65, 101-133. 

Wong, I., Patel, S. S., and Johnson, K. A. (1991). An induced-fit kinetic mechanism for DNA replication fidelity Direct measurement by single-turnover kinetics. Biochemistry 30, 526-537. 

Effects of metals on the function of various enzymes involved in the nucleic acid metabolism can also indirectly contribute to alterations in the genetic information by affecting replication fidelity. 

Kunkel TA, Bebenek K. DNA replication fidelity. Annu. Rev. Bioehem. 2000 69 497-529. 

Kuban W, Jonczyk P, Gawel D, Malanowska K, Schaaper RM, Fijalkowska IJ. Role of Escherichia coli DNA polymerase IV in 70. in vivo replication fidelity. J. Bacteriol. 2004 186 4802-4807. 

Many DNA polymerases proofread the nascent product their 3 —> 5 exonuclease activity potentially edits the outcome of each polymerization step. A mispaired nucleotide is excised before the next step proceeds. In E. coli, DNA polymerase I repairs DNA and participates in replication. Fidelity is further enhanced by an induced fit that results in a catalytically active conformation only when the complex of enzyme, DNA, and correct dNTP is formed. Helicases prepare the way for DNA replication by using ATP hydrolysis to separate the strands of the double helix. 

Differential scanning calorimetry (DSC) experiments were utilized to examine the thermodynamic contribution of AF heterogeneity on replication fidelity [79]. Unlike the UV-based data, DSC-derived thermodynamic data are model-... 

Florian, J., Goodman, M.F., and Warshel, A. (2005) Computer simulations of protein functions searching for the molecular origin of the replication fidelity of DNA polymerases. Proc. Natl. Acad. Sci. USA, 102, 6819-6824. 

Excehent summary of the molecular basis of replication fidelity... 

Reactions of metals with proteins, that is, binding to amino or sulfhydryl groups, can result in an inhibition or at least considerable misfunction of enzymes involved in DNA metabolism and repair (Buchko et al. 2000, Hartwig 2001b). Alterations in genetic information by affecting replication fidelity... 

How does proofreading improve replication fidelity Spontaneous mutation of bases and insertion of the wrong nucleotide would normally lead to an error every 10 to 10 bases. However, the proofreading capability of the DNA polymerases allows mismatched nucleotides to be removed, reducing the errors to one in 10 to 10 . 

Zhang, X., and Mathews, C. K. (1995). Natural DNA precursor pool asymmetry and base sequence context as determinants of replication fidelity. J. BioL Chem. 270, 8401-8404. 

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