Structural variability of CG-rich DNA 18-mers accommodating double T–T mismatches

The structural impact of DNA mismatches

The structure and dynamics of all the transversion and transition mismatches in three different DNA environments have been characterized by molecular dynamics simulations and NMR spectroscopy. We found that the presence of mismatches produced significant local structural alterations, especially in the case of purine transversions. Mismatched pairs often show promiscuous hydrogen bonding pattern...

Signature Random Fields for Accommodating Illumination Variability

In this paper, we document an extension to traditional pattern-theoretic object templates to jointly accommodate variations in object pose and in the radiant appearance of the object surface. We first review classical object templates accommodating pose variation. We then develop an efficient subspace representation for the object radiance indexed on the surface of the three dimensional object ...

Supercoiling DNA Locates Mismatches.

We present a method of detecting sequence defects by supercoiling DNA with magnetic tweezers. The method is sensitive to a single mismatched base pair in a DNA sequence of several thousand base pairs. We systematically compare DNA molecules with 0 to 16 adjacent mismatches at 1 M monovalent salt and 3.6 pN force and show that under these conditions, a single plectoneme forms and is stably pinne...

Light Switch for DNA Mismatches

Circular double-stranded forms of TT virus DNA in the liver.

TT virus (TTV) is an unenveloped, circular, and single-stranded DNA virus commonly infecting human beings worldwide. TTV DNAs in paired serum and liver tissues from three viremic individuals were separated by gel electrophoresis and characterized biophysically. TTV DNAs in sera migrated in sizes ranging from 2.0 to 2.5 kb. TTV DNAs in liver tissues, however, migrated at 2.0 to 2.5 kb as well as...