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Title: The unusual and dynamic character of PX-DNA

Abstract

PX-DNA is a four-stranded DNA structure that has been implicated in the recognition of homology, either continuously, or in an every-other-half-turn fashion. Some of the structural features of the molecule have been noted previously, but the structure requires further characterization. Here, we report atomic force microscopic characterization of PX molecules that contain periodically placed biotin groups, enabling the molecule to be labeled by streptavidin molecules at these sites. In comparison with conventional double stranded DNA and with antiparallel DNA double crossover molecules, it is clear that PX-DNA is a more dynamic structure. Furthermore, the spacing between the nucleotide pairs along the helix axis is shorter, suggesting a mixed B/A structure. Circular dichroism spectroscopy indicates unusual features in the PX molecule that are absent in both the molecules to which it is compared.

Authors:
 [1];  [1];  [1];  [1];  [1]
+ Show Author Affiliations
  1. New York Univ. (NYU), NY (United States). Dept. of Chemistry
Publication Date:
Research Org.:
New York Univ. (NYU), NY (United States)
Sponsoring Org.:
USDOE Office of Science (SC); National Institutes of Health (NIH); National Science Foundation (NSF); US Army Research Office (ARO); US Department of the Navy, Office of Naval Research (ONR); Gordon and Betty Moore Foundation
OSTI Identifier:
1326213
Alternate Identifier(s):
OSTI ID: 1326214; OSTI ID: 1454428
Grant/Contract Number:  
SC0007991; GM-29554; CMMI-1120890; EFRI-1332411; CCF-1117210; MURI W911NF-11-1-0024; N000141110729; N000140911118; 3849
Resource Type:
Accepted Manuscript
Journal Name:
Nucleic Acids Research
Additional Journal Information:
Journal Volume: 43; Journal Issue: 15; Journal ID: ISSN 0305-1048
Publisher:
Oxford University Press
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 60 APPLIED LIFE SCIENCES

Citation Formats

Niu, Dong, Jiang, Hualin, Sha, Ruojie, Canary, James W., and Seeman, Nadrian C. The unusual and dynamic character of PX-DNA. United States: N. p., 2015. Web. doi:10.1093/nar/gkv739.
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Niu, Dong, Jiang, Hualin, Sha, Ruojie, Canary, James W., & Seeman, Nadrian C. The unusual and dynamic character of PX-DNA. United States. https://doi.org/10.1093/nar/gkv739
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Niu, Dong, Jiang, Hualin, Sha, Ruojie, Canary, James W., and Seeman, Nadrian C. Wed . "The unusual and dynamic character of PX-DNA". United States. https://doi.org/10.1093/nar/gkv739. https://www.osti.gov/servlets/purl/1326213.
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@article{osti_1326213,
title = {The unusual and dynamic character of PX-DNA},
author = {Niu, Dong and Jiang, Hualin and Sha, Ruojie and Canary, James W. and Seeman, Nadrian C.},
abstractNote = {PX-DNA is a four-stranded DNA structure that has been implicated in the recognition of homology, either continuously, or in an every-other-half-turn fashion. Some of the structural features of the molecule have been noted previously, but the structure requires further characterization. Here, we report atomic force microscopic characterization of PX molecules that contain periodically placed biotin groups, enabling the molecule to be labeled by streptavidin molecules at these sites. In comparison with conventional double stranded DNA and with antiparallel DNA double crossover molecules, it is clear that PX-DNA is a more dynamic structure. Furthermore, the spacing between the nucleotide pairs along the helix axis is shorter, suggesting a mixed B/A structure. Circular dichroism spectroscopy indicates unusual features in the PX molecule that are absent in both the molecules to which it is compared.},
doi = {10.1093/nar/gkv739},
journal = {Nucleic Acids Research},
number = 15,
volume = 43,
place = {United States},
year = {Wed Jul 15 00:00:00 EDT 2015},
month = {Wed Jul 15 00:00:00 EDT 2015}
}
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Publisher's Version of Record
https://doi.org/10.1093/nar/gkv739
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Atomic-Level Simulations of Seeman DNA Nanostructures: The Paranemic Crossover in Salt Solution
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