Sequence-specific DNA nicking endonucleases

Biomolecular Concepts
Shuang-Yong Xu

Abstract

A group of small HNH nicking endonucleases (NEases) was discovered recently from phage or prophage genomes that nick double-stranded DNA sites ranging from 3 to 5 bp in the presence of Mg2+ or Mn2+. The cosN site of phage HK97 contains a gp74 nicking site AC↑CGC, which is similar to AC↑CGR (R=A/G) of N.ϕGamma encoded by Bacillus phage Gamma. A minimal nicking domain of 76 amino acid residues from N.ϕGamma could be fused to other DNA binding partners to generate chimeric NEases with new specificities. The biological roles of a few small HNH endonucleases (HNHE, gp74 of HK97, gp37 of ϕSLT, ϕ12 HNHE) have been demonstrated in phage and pathogenicity island DNA packaging. Another group of NEases with 3- to 7-bp specificities are either natural components of restriction systems or engineered from type IIS restriction endonucleases. A phage group I intron-encoded HNH homing endonucleases, I-PfoP3I was found to nick DNA sites of 14-16 bp. I-TslI encoded by T7-like ΦI appeared to nick DNA sites with a 9-bp core sequence. DNA nicking and labeling have been applied to optical mapping to aid genome sequence assembly and detection of large insertion/deletion mutations in genomic DNA of cancer cells. Nicking enzyme-mediated amplification re...Continue Reading

References

Jan 1, 1992·Proceedings of the National Academy of Sciences of the United States of America·G T WalkerD D Shank
Apr 11, 1992·Nucleic Acids Research·G T WalkerD P Malinowski
May 15, 1992·Proceedings of the National Academy of Sciences of the United States of America·L LiS Chandrasegaran
Mar 11, 1986·Nucleic Acids Research·C M LowM J Waring
Oct 15, 1993·Proceedings of the National Academy of Sciences of the United States of America·D S Waugh, R T Sauer
Aug 1, 1996·Molecular and Cellular Probes·C A SpargoG T Walker
Jul 3, 1997·Nature·D A WahA K Aggarwal
Jun 17, 1998·Biological Chemistry·Y G KimS Chandrasegaran
Sep 2, 1998·Proceedings of the National Academy of Sciences of the United States of America·J BitinaiteI Schildkraut
Nov 1, 2001·Proceedings of the National Academy of Sciences of the United States of America·Y XuH Kong
Mar 26, 2003·Nucleic Acids Research·Richard J RobertsShuang-yong Xu
Apr 8, 2003·Proceedings of the National Academy of Sciences of the United States of America·Jeffrey Van NessDavid J Galas
May 17, 2003·Proceedings of the National Academy of Sciences of the United States of America·Giedrius SasnauskasVirginijus Siksnys
Jul 2, 2003·Inflammation Research : Official Journal of the European Histamine Research Society ... [et Al.]·Y IwanagaJ T Rosenbaum
Oct 19, 2004·Genome Research·Martin YuilleYoshihide Hayashizaki
Feb 11, 2005·Current Medical Research and Opinion·Marianne O Price, Francis W Price
Apr 14, 2005·Journal of Molecular Biology·Daniel F HeiterGeoffrey G Wilson
Jun 2, 2006·Protein Expression and Purification·Siu-hong ChanShuang-yong Xu
Mar 8, 2007·Nucleic Acids Research·Jurate BitinaiteRita Vaiskunaite
Feb 22, 2008·Nucleic Acids Research·Jimin PeiNick V Grishin
May 27, 2008·Nucleic Acids Research·Jimin PeiNick V Grishin
Feb 10, 2009·Current Biology : CB·Richard P Bonocora, David A Shub
Feb 19, 2009·Nucleic Acids Research·Kelly L SandersStephen E Halford
Feb 28, 2009·Nature Protocols·Lawrence A Kelley, Michael J E Sternberg
Mar 12, 2009·Proceedings of the National Academy of Sciences of the United States of America·Audrey McConnell SmithBarry L Stoddard
Sep 15, 2009·Protein Expression and Purification·Penghua ZhangShuang-yong Xu
Dec 4, 2009·Nucleic Acids Research·Priscilla Hiu-Mei TooShuang-yong Xu
Aug 13, 2010·Nucleic Acids Research·Iain A MurrayRichard J Roberts

❮ Previous
Next ❯

Citations

Sep 11, 2019·Nucleic Acids Research·Thomas LutzShuang-Yong Xu
Feb 13, 2021·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Piotr MinkiewiczMarta Turło
Apr 23, 2021·Nucleic Acids Research·Rui ChengBin Zhu

❮ Previous
Next ❯

Related Concepts

Related Feeds

Bacteriophage: Phage Therapy

Phage therapy uses bacterial viruses (bacteriophages) to treat bacterial infections and is widely being recognized as an alternative to antibiotics. Here is the latest research.

CRISPR (general)

Clustered regularly interspaced short palindromic repeats (CRISPR) are DNA sequences in the genome that are recognized and cleaved by CRISPR-associated proteins (Cas). CRISPR-Cas system enables the editing of genes to create or correct mutations. Discover the latest research on CRISPR here.

CRISPR & Staphylococcus

CRISPR-Cas system enables the editing of genes to create or correct mutations. Staphylococci are associated with life-threatening infections in hospitals, as well as the community. Here is the latest research on how CRISPR-Cas system can be used for treatment of Staphylococcal infections.

CRISPR for Genome Editing

Genome editing technologies enable the editing of genes to create or correct mutations. Clustered regularly interspaced short palindromic repeats (CRISPR) are DNA sequences in the genome that are recognized and cleaved by CRISPR-associated proteins (Cas). Here is the latest research on the use of CRISPR-Cas system in gene editing.

CRISPR Ribonucleases Deactivation

CRISPR-Cas system enables the editing of genes to create or correct mutations. This feed focuses on mechanisms that underlie deactivation of CRISPR ribonucleases. Here is the latest research.