Praline is a multiple sequence alignment program that provodes several different alignment strategies, e.g, integration of structural information in the alignment process. It also provides a comprehensive visualization of the multiple sequence alignments. SOAP service is available.
Structure prediction; Protein secondary structure; Sequence analysis; Protein folds and structural domains; Nucleic acid structure analysis
Simossis VA, Heringa J "PRALINE: a multiple sequence alignment toolbox that integrates homology-extended and secondary structure information." Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W289-94. https://doi.org/10.1093/nar/gki390
Simossis VA1, Heringa J "The PRALINE online server: optimising progressive multiple alignment on the web." Comput Biol Chem. 2003 Oct;27(4-5):511-9 https://doi.org/10.1016/j.compbiolchem.2003.09.002
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