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TarO : a target optimisation system for structural biology

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OvertonetalNucleicAcids36Final.pdf (4.127Mb)
Date
07/2008
Author
Overton, I M
van Niekerk, C A
Carter, L G
Dawson, A
Martin, D M
Cameron, S
McMahon, S A
White, Malcolm F
Hunter, W N
Naismith, Jim
Barton, G J
Funder
BBSRC
Grant ID
BBS/B/14426
Keywords
Secondary structure Prediction
Multiple sequence Alignment
Protein sequences
High-throughput
Genomics
Database
Disorder
Proteomics
Evolution
Selection
QH426 Genetics
Metadata
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Abstract
TarO (http://www.compbio.dundee.ac.uk/taro) offers a single point of reference for key bioinformatics analyses relevant to selecting proteins or domains for study by structural biology techniques. The protein sequence is analysed by 17 algorithms and compared to 8 databases. TarO gathers putative homologues, including orthologues, and then obtains predictions of properties for these sequences including crystallisation propensity, protein disorder and post-translational modifications. Analyses are run on a high-performance computing cluster, the results integrated, stored in a database and accessed through a web-based user interface. Output is in tabulated format and in the form of an annotated multiple sequence alignment (MSA) that may be edited interactively in the program Jalview. TarO also simplifies the gathering of additional annotations via the Distributed Annotation System, both from the MSA in Jalview and through links to Dasty2. Routes to other information gateways are included, for example to relevant pages from UniProt, COG and the Conserved Domains Database. Open access to TarO is available from a guest account with private accounts for academic use available on request. Future development of TarO will include further analysis steps and integration with the Protein Information Management System (PIMS), a sister project in the BBSRC Structural Proteomics of Rational Targets initiative.
Citation
Overton , I M , van Niekerk , C A , Carter , L G , Dawson , A , Martin , D M , Cameron , S , McMahon , S A , White , M F , Hunter , W N , Naismith , J & Barton , G J 2008 , ' TarO : a target optimisation system for structural biology ' , Nucleic Acids Research , vol. 36 , no. suppl 2 , pp. W190-W196 . https://doi.org/10.1093/nar/gkn141
Publication
Nucleic Acids Research
Status
Peer reviewed
DOI
https://doi.org/10.1093/nar/gkn141
ISSN
0305-1048
Type
Journal article
Rights
© 2008 The Author(s) This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
Description
This work was funded by the UK Biotechnology and Biological Sciences Research Council (BBSRC) Structural Proteomics of Rational Targets (SPoRT) initiative, (Grant BBS/B/14434). Funding to pay the Open Access publication charges for this article was provided by BBSRC.
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URL
http://www.scopus.com/inward/record.url?scp=48449093586&partnerID=8YFLogxK
URI
http://hdl.handle.net/10023/1028

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