ExonVisualiser – application for visualization exon units in 2D and 3D protein structures

• Published in: Bioinformation Vol. 8; no. 25; pp. 1280 - 1282
• Main Authors: Piwowar, Monika, Krzysztof, Porembski, Piotr, Piwowar
• Format: Journal Article
• Language: English
• Published: Singapore Biomedical Informatics 01.01.2012
• Subjects: Software; Exon unit identification in proteins; Exon visualisation
• ISSN: 0973-8894; 0973-2063; 0973-2063
• DOI: 10.6026/97320630081280

The web application oriented on identification and visualization of protein regions encoded by exons is presented. The Exon Visualiser can be used for visualisation on different levels of protein structure: at the primary (sequence) level and secondary structures level, as well as at the level of tertiary protein structure. The programme is suitable for processing data for all genes which have protein expressions deposited in the PDB database. The procedure steps implemented in the application: I) loading exons sequences and theirs coordinates from GenBank file as well as protein sequences: CDS from GenBank and aminoacid sequence from PDB II) consensus sequence creation (comparing amino acid sequences form PDB file with the CDS sequence from GenBank file) III) matching exon coordinates IV) visualisation in 2D and 3D protein structures. Presented web-tool among others provides the color-coded graphical display of protein sequences and chains in three dimensional protein structures which are correlated with the corresponding exons. http://149.156.12.53/ExonVisualiser/