PseudoBase

RNA Type: Structure

Overview: PseudoBase is a database specific of RNA pseudoknot structures. It includes information of sequence/structure, class (RNA type), organism and pseudoknot component structures. In case, PseudoBase++ is the extension of PseudoBase database. The main updates in PseudoBase++ include a quick and advanced search, mapping existing sequences to GenBank, visualization with PseudoViewer, classification of pseudoknots per type and the option to submit new pseudoknots.

Search Methods:

• Keyword: search by sequence, PKB number, organism name, comment, submitted by, reference, RNA type and structure features (e.g. pseudoknot, loop length), author or journal.

Source: Crystallography, NMR, mutational experiments and sequence comparisons.

Information Source: Experimental, In silico annotation.

Information Content: Crystallography, Mutation, Pseudoknot, Sequence, Structure.

Reference: Taufer et al., 2009; Batenburg et al., 2001; Batenburg et al., 2000

PubmedID: 10592225, 11125088, 18988624.

Year: 2009;2001;2000

Multiple search: Yes

Download: No

Genomic Overview: No

Organism: Homo sapiens (Human), Mus musculus (House Mouse), Bos Taurus (Cattle), Saccharomyces cerevisiae, Bombyx mori, Escherichia coli, Bacillus subtilis, AKV murine leukemia virus, alfalfa mosaic virus, andean potato latent virus, B. subtilis, baboon endogenous virus, bacteriophage Q-beta, bacteriophage T4, bamboo mosaic virus and 112 others.

Url: http://pseudobaseplusplus.utep.edu/