scholarly journals DNA Sequence Context as a Determinant of the Quantity and Chemistry of Guanine Oxidation Produced by Hydroxyl Radicals and One-electron Oxidants

2008 ◽  
Vol 283 (51) ◽  
pp. 35569-35578 ◽  
Author(s):  
Yelena Margolin ◽  
Vladimir Shafirovich ◽  
Nicholas E. Geacintov ◽  
Michael S. DeMott ◽  
Peter C. Dedon
Keyword(s):  
Dna Sequence ◽  
Hydroxyl Radicals ◽  
Sequence Context ◽  
Guanine Oxidation

Thermodynamic, Spectroscopic, and Equilibrium Binding Studies of DNA Sequence Context Effects in Six 22-Base Pair Deoxyoligonucleotides

Biochemistry ◽  
1999 ◽  
Vol 38 (34) ◽  
pp. 11197-11208 ◽  
Author(s):  
Peter V. Riccelli ◽  
Peter M. Vallone ◽  
Irina Kashin ◽  
Brian D. Faldasz ◽  
Michael J. Lane ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Base Pair ◽  
Context Effects ◽  
Binding Studies ◽  
Sequence Context ◽  
Equilibrium Binding

scholarly journals DNA Sequence Context Effects on the Glycosylase Activity of Human 8-Oxoguanine DNA Glycosylase

2012 ◽  
Vol 287 (44) ◽  
pp. 36702-36710 ◽  
Author(s):  
Akira Sassa ◽  
William A. Beard ◽  
Rajendra Prasad ◽  
Samuel H. Wilson
Keyword(s):  
Dna Sequence ◽  
Context Effects ◽  
Dna Glycosylase ◽  
Sequence Context

scholarly journals DNA sequence context as a marker of CpG methylation instability in normal and cancer tissues

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Giovanni Scala ◽  
Antonio Federico ◽  
Domenico Palumbo ◽  
Sergio Cocozza ◽  
Dario Greco
Keyword(s):  
Dna Sequence ◽  
Cpg Methylation ◽  
Sequence Context ◽  
Cancer Tissues

scholarly journals Repair efficiency of clustered abasic sites by APE1 in nucleosome core particles is sequence and position dependent

RSC Advances ◽  
2015 ◽  
Vol 5 (30) ◽  
pp. 23691-23698 ◽  
Author(s):  
Vandana Singh ◽  
Bhavini Kumari ◽  
Prolay Das
Keyword(s):  
Dna Sequence ◽  
Sequence Context ◽  
Nucleosome Core ◽  
Abasic Sites ◽  
Nucleosome Core Particles ◽  
Repair Efficiency ◽  
Core Particles

DNA sequence context and nucleosomal positioning guide the repair efficiency of clustered abasic sites by APE1 enzyme.

scholarly journals DNA sequence context controls the binding and processivity of the T7 DNA primase

2018 ◽  
Author(s):  
Ariel Afek ◽  
Stefan Ilic ◽  
John Horton ◽  
David B. Lukatsky ◽  
Raluca Gordan ◽  
...  
Keyword(s):  
Dna Binding ◽  
Dna Sequence ◽  
Functional Activity ◽  
Dna Recognition ◽  
Unique Combination ◽  
Binding Assays ◽  
Sequence Context ◽  
Sequence Composition ◽  
Complex Landscape ◽  
Biochemical Analyses

SUMMARYPrimases are key enzymes involved in DNA replication. They act on single-stranded DNA, and catalyze the synthesis of short RNA primers used by DNA polymerases. Here, we investigate the DNA-binding and activity of the bacteriophage T7 primase using a new workflow called High-Throughput Primase Profiling (HTPP). Using a unique combination of high-throughput binding assays and biochemical analyses, HTPP reveals a complex landscape of binding specificity and functional activity for the T7 primase, determined by sequences flanking the primase recognition site. We identified specific features, such as G/T-rich flanks, which increase primase-DNA binding up to 10-fold and, surprisingly, also increase the length of newly formed RNA (up to 3-fold). To our knowledge, variability in primer length has not been reported for this primase. We expect that applying HTPP to additional enzymes will reveal new insights into the effects of DNA sequence composition on the DNA recognition and functional activity of primases.

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