ArticleBiochemistry2008
Use of 2-aminopurine fluorescence to study the role of the beta hairpin in the proofreading pathway catalyzed by the phage T4 and RB69 DNA polymerases.
Article in Biochemistry, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 31 citations in OpenAlex.
- Cryo-EM structure of DNA polymerase of African swine fever virus.Nucleic acids research · 2024Article
- Insights into DNA polymerase δ's mechanism for accurate DNA replication.Journal of molecular modeling · 2019Article
- Structural consequence of the most frequently recurring cancer-associated substitution in DNA polymerase ε.Nature communications · 2019Article
- Fidelity of DNA replication-a matter of proofreading.Current genetics · 2018Review
- Site-Specific Fluorescence Dynamics To Probe Polar Arrest by Fob1 in Replication Fork Barrier Sequences.ACS omega · 2017Article
- Structural basis for processivity and antiviral drug toxicity in human mitochondrial DNA replicase.The EMBO journal · 2015Article
- Mechano-chemical kinetics of DNA replication: identification of the translocation step of a replicative DNA polymerase.Nucleic acids research · 2015Article
- Elucidation of kinetic mechanisms of human translesion DNA polymerase κ using tryptophan mutants.The FEBS journal · 2014Article
- Engineering processive DNA polymerases with maximum benefit at minimum cost.Frontiers in microbiology · 2014Article
- Unwinding of primer-templates by archaeal family-B DNA polymerases in response to template-strand uracil.Nucleic acids research · 2013Article
- DNA polymerase delta in DNA replication and genome maintenance.Environmental and molecular mutagenesis · 2012Review
- Synthetic nucleotides as probes of DNA polymerase specificity.Journal of nucleic acids · 2012Article
- Structure of the 2-aminopurine-cytosine base pair formed in the polymerase active site of the RB69 Y567A-DNA polymerase.Biochemistry · 2011Article
- A crystallographic study of the role of sequence context in thymine glycol bypass by a replicative DNA polymerase serendipitously sheds light on the exonuclease complex.Journal of molecular biology · 2011Article
- DNA polymerases provide a canon of strategies for translesion synthesis past oxidatively generated lesions.Current opinion in structural biology · 2011Review
- The p12 subunit of human polymerase delta modulates the rate and fidelity of DNA synthesis.Biochemistry · 2010Article
- Proofreading dynamics of a processive DNA polymerase.The EMBO journal · 2009Article
- The 3'-to-5' exonuclease activity of vaccinia virus DNA polymerase is essential and plays a role in promoting virus genetic recombination.Journal of virology · 2009Article
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Authors and funding
3 authors at 1 institution in 2 countries.
Funding
Abstract
For DNA polymerases to proofread a misincorporated nucleotide, the terminal 3-4 nucleotides of the primer strand must be separated from the template strand before being bound in the exonuclease active center. Genetic and biochemical studies of the bacteriophage T4 DNA polymerase revealed that a prominent beta-hairpin structure in the exonuclease domain is needed to efficiently form the strand-separated exonuclease complexes. We present here further mutational analysis of the loop region of the T4 DNA polymerase beta-hairpin structure, which provides additional evidence that residues in the loop, namely, Y254 and G255, are important for DNA replication fidelity. The mechanism of strand separation was probed in in vitro reactions using the fluorescence of the base analogue 2-aminopurine (2AP) and mutant RB69 DNA polymerases that have modifications to the beta hairpin, to the exonuclease active site, or to both. We propose from these studies that the beta hairpin in the exonuclease domain of the T4 and RB69 DNA polymerases functions to facilitate strand separation, but residues in the exonuclease active center are required to capture the 3' end of the primer strand following strand separation.
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