Title
RepeatsDB-lite: A web server for unit annotation of tandem repeat proteins
Date Issued
02 July 2018
Access level
open access
Resource Type
journal article
Author(s)
University of Padua
Publisher(s)
Oxford University Press
Abstract
RepeatsDB-lite (http://protein.bio.unipd.it/repeatsdb-lite) is a web server for the prediction of repetitive structural elements and units in tandem repeat (TR) proteins. TRs are a widespread but poorly annotated class of non-globular proteins carrying heterogeneous functions. RepeatsDB-lite extends the prediction to all TR types and strongly improves the performance both in terms of computational time and accuracy over previous methods, with precision above 95% for solenoid structures. The algorithm exploits an improved TR unit library derived from the RepeatsDB database to perform an iterative structural search and assignment. The web interface provides tools for analyzing the evolutionary relationships between units and manually refine the prediction by changing unit positions and protein classification. An all-against-all structure-based sequence similarity matrix is calculated and visualized in real-time for every user edit. Reviewed predictions can be submitted to RepeatsDB for review and inclusion.
Start page
W402
End page
W407
Volume
46
Issue
W1
Language
English
OCDE Knowledge area
Bioquímica, Biología molecular
Biotecnología médica
Scopus EID
2-s2.0-85050871019
PubMed ID
Source
Nucleic Acids Research
ISSN of the container
03051048
Sponsor(s)
University of Padua. Funding for open access charge: University of Padua. Conflict of interest statement. None declared.
Sources of information:
Directorio de Producción Científica
Scopus