JOY: protein sequence-structure representation and analysis

• Published in: Bioinformatics (Oxford, England) Vol. 14; no. 7; pp. 617 - 623
• Main Authors: Mizuguchi, K, Deane, C.M, Blundell, T.L, Johnson, M.S, Overington, J.P
• Format: Journal Article
• Language: English
• Published: England 1998
• Subjects: Amino Acid Sequence; amino acid sequences; chemical structure; comparisons; computer software; Hydrogen Bonding; Molecular Sequence Data; Protein Conformation; protein structure; Protein Structure, Secondary; proteins; Proteins - chemistry; Sequence Alignment; Software
• ISSN: 1367-4803; 1367-4811
• DOI: 10.1093/bioinformatics/14.7.617

JOY is a program to annotate protein sequence alignments with three-dimensional (3D) structural features. It was developed to display 3D structural information in a sequence alignment and to help understand the conservation of amino acids in their specific local environments.
: The JOY representation now constitutes an essential part of the two databases of protein structure alignments: HOMSTRAD (http://www-cryst.bioc.cam.ac.uk/homstrad ) and CAMPASS (http://www-cryst.bioc.cam.ac. uk/campass). It has also been successfully used for identifying distant evolutionary relationships.
The program can be obtained via anonymous ftp from torsa.bioc.cam.ac.uk from the directory /pub/joy/. The address for the JOY server is http://www-cryst.bioc.cam.ac.uk/cgi-bin/joy.cgi.
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