URL: http://bioinformatics.biol.uoa.gr/ExTopoDB/
Proper Citation: ExTopoDB (RRID:SCR_013143)
Description: A publicly accessible database of experimentally derived topological models of transmembrane proteins. It contains experimental information about the topology of 2143 transmembrane proteins. This information was collected from studies in the literature that reported the use of biochemical methods for the determination of the topology of transmembrane proteins. Each record contains unique information about the given protein, such as its sequence, cross-references to many publicly available databases worldwide, the protein''s name and organism source. The web interface of the database offers the user the ability to submit advanced queries for text search within ExTopoDB''s protein entries and there is also an interface for running BLAST against the database. Furthermore, the results of topology prediction using the HMM-TM algorithm are included for each protein in the database (unconstrained prediction) and we also incorporated the experimental information about the topology of the proteins in the HMM-TM prediction procedure, producing more reliable topology models (constrained prediction).
Abbreviations: ExTopoDB
Resource Type: data or information resource, database
Defining Citation: PMID:20601677
Keywords: transmembrane protein, protein structure, topological model, blast, transmembrane, protein, model
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University of Athens Biophysics and Bioinformatics Laboratory |
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