The ITS2 Database II: homology modelling RNA structure for molecular systematics
نویسندگان
چکیده
منابع مشابه
The ITS2 Database II: homology modelling RNA structure for molecular systematics
An increasing number of phylogenetic analyses are based on the internal transcribed spacer 2 (ITS2). They mainly use the fast evolving sequence for low-level analyses. When considering the highly conserved structure, the same marker could also be used for higher level phylogenies. Furthermore, structural features of the ITS2 allow distinguishing different species from each other. Despite its im...
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The internal transcribed spacer 2 (ITS2) has been used as a phylogenetic marker for more than two decades. As ITS2 research mainly focused on the very variable ITS2 sequence, it confined this marker to low-level phylogenetics only. However, the combination of the ITS2 sequence and its highly conserved secondary structure improves the phylogenetic resolution(1) and allows phylogenetic inferenc...
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An improved method of secondary structure prediction has been developed to aid the modelling of proteins by homology. Selected data from four published algorithms are scaled and combined as a weighted mean to produce consensus algorithms. Each consensus algorithm is used to predict the secondary structure of a protein homologous to the target protein and of known structure. By comparison of the...
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For evolutionary comparisons, phylogenetics and evaluation of potential interbreeding taxa of a species, various loci have served for animals and plants and protistans. One [second internal transcribed spacer (ITS2) of the nuclear ribosomal DNA] is highly suitable for all. Its sequence is species specific. It has already been used extensively and very successfully for plants and some protistans...
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Protein structure is more conserved than sequence in nature. In this direction we developed a novel methodology that significantly improves conventional homology modelling when sequence identity is low, by taking into consideration 3D structural features of the template, such as size and shape. Herein, our new homology modelling approach was applied to the homology modelling of the RNA-dependen...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2007
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkm827