MOTIVATION: 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. RESULTS: : 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. AVAILABILITY: 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. CONTACT: kenji@cryst.bioc.cam.ac.uk
MOTIVATION: 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. RESULTS: : 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. AVAILABILITY: 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. CONTACT: kenji@cryst.bioc.cam.ac.uk
Authors: Debanu Das; Piotr Kozbial; Herbert L Axelrod; Mitchell D Miller; Daniel McMullan; S Sri Krishna; Polat Abdubek; Claire Acosta; Tamara Astakhova; Prasad Burra; Dennis Carlton; Connie Chen; Hsiu-Ju Chiu; Thomas Clayton; Marc C Deller; Lian Duan; Ylva Elias; Marc-André Elsliger; Dustin Ernst; Carol Farr; Julie Feuerhelm; Anna Grzechnik; Slawomir K Grzechnik; Joanna Hale; Gye Won Han; Lukasz Jaroszewski; Kevin K Jin; Hope A Johnson; Heath E Klock; Mark W Knuth; Abhinav Kumar; David Marciano; Andrew T Morse; Kevin D Murphy; Edward Nigoghossian; Amanda Nopakun; Linda Okach; Silvya Oommachen; Jessica Paulsen; Christina Puckett; Ron Reyes; Christopher L Rife; Natasha Sefcovic; Sebastian Sudek; Henry Tien; Christine Trame; Christina V Trout; Henry van den Bedem; Dana Weekes; Aprilfawn White; Qingping Xu; Keith O Hodgson; John Wooley; Ashley M Deacon; Adam Godzik; Scott A Lesley; Ian A Wilson Journal: Proteins Date: 2009-05-01