Riboswitch finder - a tool for identification of riboswitch RNAs

被引：54

作者：

Bengert, P

Dandekar, T ^{[1
]}

机构：

[1] Univ Wurzburg, Bioctr, Dept Bioinformat, D-97070 Wurzburg, Germany

[2] Univ Heidelberg, Zentrum Biochem, Project Grp Dandekar Schirmer B2, D-69120 Heidelberg, Germany

[3] European Mol Biol Lab, D-69012 Heidelberg, Germany

[4] Max Delbrueck Ctr Mol Med, D-13092 Berlin, Germany

来源：

NUCLEIC ACIDS RESEARCH | 2004年 / 32卷

关键词：

D O I：

10.1093/nar/gkh352

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We describe a dedicated RNA motif search program and web server to identify RNA riboswitches. The Riboswitch finder analyses a given sequence using the web interface, checks specific sequence elements and secondary structure, calculates and displays the energy folding of the RNA structure and runs a number of tests including this information to determine whether high-sensitivity riboswitch motifs (or variants) according to the Bacillus subtilis type are present in the given RNA sequence. Batch-mode determination (all sequences input at once and separated by FASTA format) is also possible. The program has been implemented and is available both as local software for in-house installation and as a web server at http://www.biozentrum.uni-wuerzburg.de/bioinformatik/Riboswitch/.

引用

页码：W154 / W159

页数：6

共 11 条

[1] HutC/FarR-like bacterial transcription factors of the GntR family contain a small molecule-binding domain of the chorismate lyase fold [J].