databases > DOI:10.25504/FAIRsharing.tp9z4q

ready ArchDB

General Information
ArchDB is a compilation of structural classifications of loops extracted from known protein structures. The structural classification is based on the geometry and conformation of the loop. The geometry is defined by four internal variables and the type of regular flanking secondary structures, resulting in 10 different loop types. Loops in ArchDB have been classified using an improved version (Espadaler et al.) of the original ArchType program published in 1997 by Oliva et al.

Homepage http://sbi.imim.es/archdb

Countries that developed this resource Spain

Created in 2004

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How to cite this record FAIRsharing.org: ArchDB; ArchDB; DOI: https://doi.org/10.25504/FAIRsharing.tp9z4q; Last edited: Jan. 8, 2019, 1:17 p.m.; Last accessed: Oct 20 2019 2:07 p.m.


Record updated: Sept. 30, 2016, 10:12 a.m. by The FAIRsharing Team.

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Data Access

Data download http://sbi.imim.es/archdb/download



Publications

ArchDB: automated protein loop classification as a tool for structural genomics.

Espadaler J., Fernandez-Fuentes N., Hermoso A., Querol E., Aviles FX., Sternberg MJ., Oliva B.,
Nucleic Acids Res. 2004

View Paper (PubMed)

ArchDB 2014: structural classification of loops in proteins.

Bonet J,Planas-Iglesias J,Garcia-Garcia J,Marin-Lopez MA,Fernandez-Fuentes N,Oliva B
Nucleic Acids Res 2013

View Paper (PubMed) View Publication

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Grant Number(s)

  • EUI2009-04018 (Spanish Ministry of Science and Innovation (MICINN))

  • FEDER BIO2008-0205 (Spanish Ministry of Science and Innovation (MICINN))

  • FEDER BIO2011-22568 (Spanish Ministry of Science and Innovation (MICINN))