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Complex between a Multicrossover DNA Nanostructure, PX-DNA, and T7 Endonuclease I.

Abstract：

:Paranemic crossover DNA (PX-DNA) is a four-stranded multicrossover structure that has been implicated in recombination-independent recognition of homology. Although existing evidence has suggested that PX is the DNA motif in homologous pairing (HP), this conclusion remains ambiguous. Further investigation is needed but will require development of new tools. Here, we report characterization of the complex between PX-DNA and T7 endonuclease I (T7endoI), a junction-resolving protein that could serve as the prototype of an anti-PX ligand (a critical prerequisite for the future development of such tools). Specifically, nuclease-inactive T7endoI was produced and its ability to bind to PX-DNA was analyzed using a gel retardation assay. The molar ratio of PX to T7endoI was determined using gel electrophoresis and confirmed by the Hill equation. Hydroxyl radical footprinting of T7endoI on PX-DNA is used to verify the positive interaction between PX and T7endoI and to provide insight into the binding region. Cleavage of PX-DNA by wild-type T7endoI produces DNA fragments, which were used to identify the interacting sites on PX for T7endoI and led to a computational model of their interaction. Altogether, this study has identified a stable complex of PX-DNA and T7endoI and lays the foundation for engineering an anti-PX ligand, which can potentially assist in the study of molecular mechanisms for HP at an advanced level.

journal_name

Biochemistry

journal_title

Biochemistry

authors

Kizer M,Huntress ID,Walcott BD,Fraser K,Bystroff C,Wang X

doi

10.1021/acs.biochem.9b00057

subject

Has Abstract

pub_date

2019-03-12 00:00:00

pages

1332-1342

issue

10

eissn

0006-2960

issn

1520-4995

journal_volume

58

pub_type

杂志文章

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