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URL: http://pali.mbu.iisc.ernet.in
Proper Citation: PALI- Phylogeny and Alignment of homologous protein str (RRID:SCR_007845)
Description: It provides structure based sequence alignments for homologous proteins of known 3-D structure. The alignments available include those of pairwise (two proteins at a time) and multiple (simultaneous superposition of all the structures in a family). The database also provides dendrograms depicting phylogentic relationships based on sequence and structural similarities. The present version of the database consists of 1922 protein families containing over 13,500 protein domains, more than 2,00,000 structural alignments and over 1400 orphansorphans (single member families). PALI (version 2.7) has been derived largely from SCOP 1.73 database. The pairwise superpositions were performed using DALI by Holm and Sander while superposition of multiple structures has been performed using MUSTANG ver.3 by Konagurthu et.al. and the structural similarities are assessed using the metrices defined by Johnson and Levitt & Gerstein.
Abbreviations: PALI
Synonyms: Phylogeny and Alignment
Resource Type: data or information resource, database
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