Engineering BspQI nicking enzymes and application of N.BspQI in DNA labeling and production of single-strand DNA

Protein Expression and Purification
Penghua ZhangShuang-yong Xu

Abstract

BspQI is a thermostable Type IIS restriction endonuclease (REase) with the recognition sequence 5'GCTCTTC N1/N4 3'. Here we report the cloning and expression of the bspQIR gene for the BspQI restriction enzyme in Escherichia coli. Alanine scanning of the BspQI charged residues identified a number of DNA nicking variants. After sampling combinations of different amino acid substitutions, an Nt.BspQI triple mutant (E172A/E248A/E255K) was constructed with predominantly top-strand DNA nicking activity. Furthermore, a triple mutant of BspQI (Nb.BspQI, N235A/K331A/R428A) was engineered to create a bottom-strand nicking enzyme. In addition, we demonstrated the application of Nt.BspQI in optical mapping of single DNA molecules. Nt or Nb.BspQI-nicked dsDNA can be further digested by E. coli exonuclease III to create ssDNA for downstream applications. BspQI contains two potential catalytic sites: a top-strand catalytic site (Ct) with a D-H-N-K motif found in the HNH endonuclease family and a bottom-strand catalytic site (Cb) with three scattered Glu residues. BlastP analysis of proteins in GenBank indicated a putative restriction enzyme with significant amino acid sequence identity to BspQI from the sequenced bacterial genome Croceibacte...Continue Reading

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Citations

Nov 13, 2010·Nucleic Acids Research·Nicholas LuzziettiRalf Seidel
Nov 6, 2012·Nucleic Acids Research·Shuang-yong Xu, Yogesh K Gupta
Oct 26, 2011·Future Medicinal Chemistry·Béla Gyurcsik, Anikó Czene
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