Nucleases: diversity of structure, function and mechanism

W Yang - Quarterly reviews of biophysics, 2011 - cambridge.org
Nucleases cleave the phosphodiester bonds of nucleic acids and may be endo or exo,
DNase or RNase, topoisomerases, recombinases, ribozymes, or RNA splicing enzymes. In …

Structure and function of type II restriction endonucleases

A Pingoud, 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 …

DNA-bound structures and mutants reveal abasic DNA binding by APE1 DNA repair and coordination

CD Mol, T Izumi, S Mitra, JA Tainer - Nature, 2000 - nature.com
Non-coding apurinic/apyrimidinic (AP) sites in DNA are continually created in cells both
spontaneously and by damage-specific DNA glycosylases. The biologically critical human …

Behavior of restriction–modification systems as selfish mobile elements and their impact on genome evolution

I Kobayashi - Nucleic acids research, 2001 - academic.oup.com
Restriction–modification (RM) systems are composed of genes that encode a restriction
enzyme and a modification methylase. RM systems sometimes behave as discrete units of …

The crystal structure of DNA mismatch repair protein MutS binding to a G· T mismatch

MH Lamers, A Perrakis, JH Enzlin, HHK Winterwerp… - Nature, 2000 - nature.com
DNA mismatch repair ensures genomic integrity on DNA replication. Recognition of a DNA
mismatch by a dimeric MutS protein initiates a cascade of reactions and results in repair of …

DNA mismatch repair in eukaryotes and bacteria

K Fukui - Journal of nucleic acids, 2010 - Wiley Online Library
DNA mismatch repair (MMR) corrects mismatched base pairs mainly caused by DNA
replication errors. The fundamental mechanisms and proteins involved in the early reactions …

A structurally-validated multiple sequence alignment of 497 human protein kinase domains

V Modi, RL Dunbrack Jr - Scientific reports, 2019 - nature.com
Studies on the structures and functions of individual kinases have been used to understand
the biological properties of other kinases that do not yet have experimental structures. The …

Abasic site recognition by two apurinic/apyrimidinic endonuclease families in DNA base excision repair: the 3′ ends justify the means

CD Mol, DJ Hosfield, JA Tainer - Mutation Research/DNA Repair, 2000 - Elsevier
DNA damage occurs unceasingly in all cells. Spontaneous DNA base loss, as well as the
removal of damaged DNA bases by specific enzymes targeted to distinct base lesions …

SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories

L Aravind, KS Makarova, EV Koonin - Nucleic acids research, 2000 - academic.oup.com
Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. A detailed
computer analysis of the structural and evolutionary relationships of HJRs and related …

DNA mismatch repair and mutation avoidance pathways

TM Marti, C Kunz, O Fleck - Journal of cellular physiology, 2002 - Wiley Online Library
Unpaired and mispaired bases in DNA can arise by replication errors, spontaneous or
induced base modifications, and during recombination. The major pathway for correction of …