Kinetic mechanism of DNA polymerases: contributions of conformational dynamics and a third divalent metal ion

AT Raper, AJ Reed, Z Suo - Chemical reviews, 2018 - ACS Publications
Faithful transmission and maintenance of genetic material is primarily fulfilled by DNA
polymerases. During DNA replication, these enzymes catalyze incorporation of …

Watching right and wrong nucleotide insertion captures hidden polymerase fidelity checkpoints

JA Jamsen, DD Shock, SH Wilson - Nature Communications, 2022 - nature.com
Efficient and accurate DNA synthesis is enabled by DNA polymerase fidelity checkpoints
that promote insertion of the right instead of wrong nucleotide. Erroneous X-family …

Biological and therapeutic relevance of nonreplicative DNA polymerases to cancer

JL Parsons, NH Nicolay, RA Sharma - Antioxidants & Redox …, 2013 - liebertpub.com
Apart from surgical approaches, the treatment of cancer remains largely underpinned by
radiotherapy and pharmacological agents that cause damage to cellular DNA, which …

The Structural Role of Mg2+ Ions in a Class I RNA Polymerase Ribozyme: A Molecular Simulation Study

J Sgrignani, A Magistrato - The Journal of Physical Chemistry B, 2012 - ACS Publications
According to the RNA world hypothesis, self-replicating ribozymes, storing the genetic
information and being able to perform catalysis, were the constituents of the first living …

CYP1B1 and MYOC variants in neonatal-onset versus infantile-onset primary congenital glaucoma

S Kaushik, M Luthra-Guptasarma, D Prasher… - British Journal of …, 2023 - bjo.bmj.com
Objective To compare CYP1B1 and MYOC variants in a cohort of neonatal-onset (NO) and
infantile-onset (IO) primary congenital glaucoma (PCG). Methods This prospective …

Pre-steady-state kinetic analysis of the incorporation of anti-HIV nucleotide analogs catalyzed by human X-and Y-family DNA polymerases

JA Brown, LR Pack, JD Fowler… - Antimicrobial agents and …, 2011 - Am Soc Microbiol
Nucleoside reverse transcriptase inhibitors (NRTIs) are an important class of antiviral drugs
used to manage infections by human immunodeficiency virus, which causes AIDS …

Structural basis for the binding and incorporation of nucleotide analogs with L-stereochemistry by human DNA polymerase λ

R Vyas, WJ Zahurancik, Z Suo - Proceedings of the …, 2014 - National Acad Sciences
Although lamivudine and emtricitabine, two L-deoxycytidine analogs, have been widely
used as antiviral drugs for years, a structural basis for D-stereoselectivity against L-dNTPs …

Nucleotide binding interactions modulate dNTP selectivity and facilitate 8-oxo-dGTP incorporation by DNA polymerase lambda

MJ Burak, KE Guja, M Garcia-Diaz - Nucleic acids research, 2015 - academic.oup.com
Oxo-7, 8,-dihydro-2′-deoxyguanosine triphosphate (8-oxo-dGTP) is a major product of
oxidative damage in the nucleotide pool. It is capable of mispairing with adenosine (dA) …

Presteady state kinetic investigation of the incorporation of anti-hepatitis B nucleotide analogues catalyzed by noncanonical human DNA polymerases

JA Brown, LR Pack, JD Fowler… - Chemical Research in …, 2012 - ACS Publications
Antiviral nucleoside analogues have been developed to inhibit the enzymatic activities of the
hepatitis B virus (HBV) polymerase, thereby preventing the replication and production of …

Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7, 8-dihydro-2′-guanosine

AM Kaminski, KK Chiruvella, DA Ramsden… - Nucleic Acids …, 2019 - academic.oup.com
DNA double-strand breaks (DSBs) resulting from reactive oxygen species generated by
exposure to UV and ionizing radiation are characterized by clusters of lesions near break …