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Title: TarO : a target optimisation system for structural biology
Authors: 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
Keywords: Secondary structure Prediction
Multiple sequence Alignment
Protein sequences
High-throughput
Genomics
Database
Disorder
Proteomics
Evolution
Selection
QH426 Genetics
Issue Date: Jul-2008
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 .
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.
Version: Publisher PDF
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.
Status: Peer reviewed
URI: http://hdl.handle.net/10023/1028
DOI: http://dx.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.
Appears in Collections:University of St Andrews Research
Biology Research
Chemistry Research
Biomedical Sciences Research Complex (BSRC) Research



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