The ASTRAL compendium for protein structure and sequence analysis
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TLDR
The ASTRAL compendium provides several databases and tools to aid in the analysis of protein structures, particularly through the use of their sequences, and summarizes the overall characteristics of a protein structure.Abstract:
The ASTRAL compendium provides several databases and tools to aid in the analysis of protein structures, particularly through the use of their sequences. The SPACI scores included in the system summarize the overall characteristics of a protein structure. A structural alignments database indicates residue equivalencies in superimposed protein domain structures. The PDB sequence-map files provide a linkage between the amino acid sequence of the molecule studied (SEQRES records in a database entry) and the sequence of the atoms experimentally observed in the structure (ATOM records). These maps are combined with information in the SCOP database to provide sequences of protein domains. Selected subsets of the domain database, with varying degrees of similarity measured in several different ways, are also available. ASTRAL may be accessed at http://astral.stanford.edu/read more
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MUSCLE: multiple sequence alignment with high accuracy and high throughput
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PISCES: a protein sequence culling server
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TL;DR: PISCES is a public server for culling sets of protein sequences from the Protein Data Bank by sequence identity and structural quality criteria and provides better lists than servers that use BLAST, which is unable to identify many relationships below 40% sequence identity.
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The Jpred 3 secondary structure prediction server
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“Bioinformatics” 특집을 내면서
TL;DR: Assessment of medical technology in the context of commercialization with Bioentrepreneur course, which addresses many issues unique to biomedical products.
Journal ArticleDOI
SCOP, Structural Classification of Proteins database: applications to evaluation of the effectiveness of sequence alignment methods and statistics of protein structural data.
TL;DR: The Structural Classification of Proteins (SCOP) database provides a detailed and comprehensive description of the relationships of all known protein structures.