scholarly journals Effect of DNA Flexibility on Complex Formation of a Cationic Nanoparticle with Double-Stranded DNA

ACS Omega ◽  
2021 ◽  
Author(s):  
Sehui Bae ◽  
Inrok Oh ◽  
Jejoong Yoo ◽  
Jun Soo Kim
Keyword(s):  
Complex Formation ◽  
Dna Flexibility ◽  
Double Stranded Dna

Regulation of B-Z Conformational Transition and Complex Formation with a Z-Form Binding Protein by Introduction of Constraint to Double-Stranded DNA by using a DNA Nanoscaffold

2013 ◽  
Vol 19 (50) ◽  
pp. 16887-16890 ◽  
Author(s):  
Masayuki Endo ◽  
Masahiro Inoue ◽  
Yuki Suzuki ◽  
Chigusa Masui ◽  
Hironobu Morinaga ◽  
...  
Keyword(s):  
Complex Formation ◽  
Conformational Transition ◽  
Binding Protein ◽  
Double Stranded Dna

scholarly journals Supramolecular Complex Formation by β-Cyclodextrin and Ferrocenylnaphthalene Diimide-intercalated Double Stranded DNA and Improved Electrochemical Gene Detection

Molecules ◽  
2005 ◽  
Vol 10 (6) ◽  
pp. 693-707 ◽  
Author(s):  
Shinobu Sato ◽  
Takahiko Nojima ◽  
Michinori Waki ◽  
Shigeori Takenaka
Keyword(s):  
Complex Formation ◽  
Supramolecular Complex ◽  
Gene Detection ◽  
Double Stranded Dna

scholarly journals Stoichiometry and kinetics of complex formation by the recA protein and a double-stranded DNA

FEBS Letters ◽  
1982 ◽  
Vol 145 (1) ◽  
pp. 53-56 ◽  
Author(s):  
A.A. Volodin ◽  
V.A. Shepelev ◽  
Yu.N. Kosaganov
Keyword(s):  
Complex Formation ◽  
Reca Protein ◽  
Double Stranded Dna ◽  
Kinetics Of

scholarly journals Complex formation of double-stranded DNA (6-4)photoproducts and anti-(6-4) photoproduct antibody Fabs

2000 ◽  
Vol 44 (1) ◽  
pp. 151-152 ◽  
Author(s):  
H. Yokoyama ◽  
R. Mizutani ◽  
Y. Satow
Keyword(s):  
Complex Formation ◽  
Double Stranded Dna

Discrimination of monomer from multimer DNA disk-shaped toruses by freezeetch TEM

1984 ◽  
Vol 42 ◽  
pp. 210-211
Author(s):  
George C. Ruben ◽  
Kenneth A. Marx
Keyword(s):  
Biochemical Data ◽  
Dna Structures ◽  
Ice Surface ◽  
Double Stranded Dna ◽  
Data Support ◽  
Dna Organization ◽  
Trivalent Cations

In vitro collapse of DNA by trivalent cations like spermidine produces torus (donut) shaped DNA structures thought to have a DNA organization similar to certain double stranded DNA bacteriophage and viruses. This has prompted our studies of these structures using freeze-etch low Pt-C metal (9Å) replica TEM. With a variety of DNAs the TEM and biochemical data support a circumferential DNA winding model for hydrated DNA torus organization. Since toruses are almost invariably oriented nearly horizontal to the ice surface one of the most accessible parameters of a torus population is annulus (ring) thickness. We have tabulated this parameter for populations of both nicked, circular (Fig. 1: n=63) and linear (n=40: data not shown) ϕX-174 DNA toruses. In both cases, as can be noted in Fig. 1, there appears to be a compact grouping of toruses possessing smaller dimensions separated from a dispersed population possessing considerably larger dimensions.

Synchrony of Digestion of SV40 DNA by Exonuclease III Determined by EM

1975 ◽  
Vol 33 ◽  
pp. 674-675
Author(s):  
Ray Wu ◽  
G. Ruben ◽  
B. Siegel ◽  
P. Spielman ◽  
E. Jay
Keyword(s):  
Dark Field ◽  
Uranyl Acetate ◽  
Enzyme Digestion ◽  
Dna Molecules ◽  
Exonuclease Iii ◽  
Aluminum Films ◽  
Double Stranded Dna ◽  
Before And After ◽  
Exo Iii ◽  
Sv40 Dna

A method for determining long nucleotide sequences of double-stranded DNA is being developed. It involves (a) the synchronous digestion of the DNA from the 3' ends with EL coli exonuclease III (Exo III) followed by (b) resynthesis with labeled nucleotides and DNA polymerase. A crucial factor in the success of this method is the degree to which the enzyme digestion proceeds synchronously under proper conditions of incubation (step a). Dark field EM is used to obtain accurate measurements on the lengths and distribution of the DNA molecules before and after digestion with Exo III, while gel electrophoresis is used in parallel to obtain a mean length for these molecules. It is the measurements on a large enough sample of individual molecules by EM that provides the information on how synchronously the digestion proceeds. For length measurements, the DNA molecules were picked up on 20-30 Å thick carbon-aluminum films, using the aqueous Kleinschmidt technique and stained with 7.5 x 10-5M uranyl acetate in 90% ethanol for 3 minutes.

Torus Circumference and Thickness Parameters From a Linear DNA Size Series Suggest How Toruses Self-Assemble

1985 ◽  
Vol 43 ◽  
pp. 522-523
Author(s):  
George C. Ruben ◽  
Kenneth A. Marx
Keyword(s):  
Tertiary Structure ◽  
Dna Complexes ◽  
Tertiary Structures ◽  
Self Assembling ◽  
Double Stranded Dna ◽  
Calf Thymus ◽  
Dna Organization ◽  
Condensed Dna ◽  
Dna Size

Certain double stranded DNA bacteriophage and viruses are thought to have their DNA organized into large torus shaped structures. Morphologically, these poorly understood biological DNA tertiary structures resemble spermidine-condensed DNA complexes formed in vitro in the total absence of other macromolecules normally synthesized by the pathogens for the purpose of their own DNA packaging. Therefore, we have studied the tertiary structure of these self-assembling torus shaped spermidine- DNA complexes in a series of reports. Using freeze-etch, low Pt-C metal (10-15Å) replicas, we have visualized the microscopic DNA organization of both calf Thymus( CT) and linear 0X-174 RFII DNA toruses. In these structures DNA is circumferentially wound, continuously, around the torus into a semi-crystalline, hexagonal packed array of parallel DNA helix sections.

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