Establishment of similarities between proteins is very important for the study of the relationship between sequence, structure and function and for the analysis of evolutionary relationships. Motif-based search methods play a crucial role in establishing the connections between proteins that are particularly useful for distant relationships. This paper reports SCANMOT, a web-based server that searches for similarities between proteins by simultaneous matching of multiple motifs. SCANMOT searches for similar sequences in entire sequence databases using multiple conserved regions and utilizes inter-motif spacing as restraints. The SCANMOT server is available via http://www.ncbs.res.in/ ~faculty/mini/scanmot/scanmot.html.
Bibliographical noteFunding Information:
R.S. is a Senior Research Fellow funded by the Wellcome Trust Grant. G.P. is supported by the Wellcome Trust. We would also like to acknowledge the National Centre for Biological Sciences (TIFR) for financial and infrastructural support. The Open Access publication charges for this article were waived by Oxford University Press.
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