RNA Structure
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Recent papers in RNA Structure
The structures of complex biological assemblies, such as viruses, and the molecular mechanisms governing virus assembly in vivo and in vitro require investigation by multiple biophysical techniques. One such technique is Raman... more
We discuss in this paper a method of finding skyline or non-dominated points in a set P of n points with respect to a set S of m sites. A point pi∈ P is non-dominated if and only if for each pj∈ P, j ¹ ij\ not= i, there exists at least... more
The coexistence of multiple codes in the genome of human immunodeficiency virus type 1 (HIV-1) was analyzed. We explored factors constraining the variability of the virus genome primarily in relation to conserved RNA secondary structures... more
Ethidium bromide (EB), acridine orange (AO), methylene blue (MB) and other fluorescent compounds are often used to probe DNA structure in drug–DNA and protein–DNA interactions. They bind nucleic acids via intercalative mode and cause... more
An NMR-based structure is presented for a 20 mer hairpin model of the SL3 stem-loop from the HIV-1 packaging signal. The stem has an A-family structure. However, the GGAG tetraloop appears to be flexible with the second (G10) and fourth... more
In contrast to the fairly reliable and complete annotation of the protein coding genes in the human genome, comparable information is lacking for non-coding RNAs. We present a com- parative screen of vertebrate genomes for structural... more
Retroviruses convert their RNA genome into a DNA form by means of reverse transcription. According to the current model of reverse transcription, two strand transfer reactions are needed to synthesize a full-length DNA genome. Because... more
The binding of RNA molecules to proteins or other ligands can require extensive RNA folding to create an induced fit. Understanding the generality of this principle involves comparing structures of RNA before and after complex formation.... more
SCOR, the Structural Classication of RNA (http:// scor.lbl.gov), is a database designed to provide a comprehensive perspective and understanding of RNA motif three-dimensional structure, function, tertiary interactions and their... more
RNA plays a central role in many biological processes and is therefore an important target for drug development. In recent years an increasing wealth of structural and functional information about RNA - ligand complexes has been obtained... more