Diverse functions of restriction-modification systems in addition to cellular defense

K Vasu, V Nagaraja - Microbiology and molecular biology reviews, 2013 - Am Soc Microbiol
Restriction-modification (RM) systems are ubiquitous and are often considered primitive
immune systems in bacteria. Their diversity and prevalence across the prokaryotic kingdom …

Structure and function of type II restriction endonucleases

A **oud, A Jeltsch - Nucleic acids research, 2001 - academic.oup.com
More than 3000 type II restriction endonucleases have been discovered. They recognize
short, usually palindromic, sequences of 4–8 bp and, in the presence of Mg2+, cleave the …

Type II restriction endonucleases—a historical perspective and more

A **oud, GG Wilson, W Wende - Nucleic acids research, 2014 - academic.oup.com
This article continues the series of Surveys and Summaries on restriction endonucleases
(REases) begun this year in Nucleic Acids Research. Here we discuss 'Type II'REases, the …

Human Tdp1 cleaves a broad spectrum of substrates, including phosphoamide linkages

H Interthal, HJ Chen, JJ Champoux - Journal of Biological Chemistry, 2005 - ASBMB
Human tyrosyl-DNA phosphodiesterase (Tdp1) hydrolyzes the phosphodiester bond
between a DNA 3′ end and a tyrosyl moiety. In eukaryotic cells, this type of linkage is found …

Tyrosyl-DNA phosphodiesterase I resolves both naturally and chemically induced DNA adducts and its potential as a therapeutic target

EQ Comeaux… - Drug Metabolism Reviews, 2014 - Taylor & Francis
DNA is subject to a wide range of insults, resulting from endogenous and exogenous
sources that need to be metabolized/resolved to maintain genome integrity. Tyrosyl-DNA …

Crystal structure of a transition state mimic for Tdp1 assembled from vanadate, DNA, and a topoisomerase I-derived peptide

DR Davies, H Interthal, JJ Champoux, WGJ Hol - Chemistry & biology, 2003 - cell.com
Abstract Tyrosyl-DNA phosphodiesterase (Tdp1) is a member of the phospholipase D
superfamily and acts as a DNA repair enzyme that removes stalled topoisomerase I-DNA …

Insights into substrate binding and catalytic mechanism of human tyrosyl-DNA phosphodiesterase (Tdp1) from vanadate and tungstate-inhibited structures

DR Davies, H Interthal, JJ Champoux… - Journal of molecular …, 2002 - Elsevier
Tyrosyl-DNA phosphodiesterase (Tdp1) is a DNA repair enzyme that catalyzes the
hydrolysis of a phosphodiester bond between a tyrosine residue and a DNA 3′-phosphate …

Structural and evolutionary classification of Type II restriction enzymes based on theoretical and experimental analyses

J Orlowski, JM Bujnicki - Nucleic acids research, 2008 - academic.oup.com
For a very long time, Type II restriction enzymes (REases) have been a paradigm of
ORFans: proteins with no detectable similarity to each other and to any other protein in the …

Many type IIs restriction endonucleases interact with two recognition sites before cleaving DNA

AJ Bath, SE Milsom, NA Gormley, SE Halford - Journal of Biological …, 2002 - ASBMB
Type IIs restriction endonucleases recognize asymmetric DNA sequences and cleave both
DNA strands at fixed positions, typically several base pairs away from the recognition site …

Site-specific DNA-nicking mutants of the heterodimeric restriction endonuclease R. BbvCI

DF Heiter, KD Lunnen, GG Wilson - Journal of molecular biology, 2005 - Elsevier
The restriction enzyme R. BbvCI cleaves duplex DNA within a seven base-pair asymmetric
recognition sequence, thus: CCTCAGC/GCTGAGG→ CC^ TCAGC/GC^ TGAGG. We show …