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Bioinformatics Advance Access originally published online on June 29, 2006
Bioinformatics 2006 22(20):2455-2458; doi:10.1093/bioinformatics/btl340
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Eicosapentapeptide repeats (EPRs): novel repeat proteins specific to flowering plants

Sunil Archak and Javaregowda Nagaraju *

Laboratory of Molecular Genetics, Centre for DNA Fingerprinting and Diagnostics Hyderabad, India

*To whom correspondence should be addressed.

In this report, we describe a novel tandem peptide repeat protein, Eicosapentapeptide repeat (EPR), which occurs notably only in flowering plants. The EPRs are characterized by a 25 amino acid repeat unit, X2CX4CX10CX2HGGG, repeated 10 times tandemly. Sequence search revealed that the repeat motif is highly conserved across its occurrence. EPRs are predicted to exist as quasi-globular stable structures owing to highly conserved amino acid positions and potential disulfide bridges. Proteins containing EPRs are predicted to be located in chloroplasts; non-enzymatic and peptide or DNA-binding in molecular function; and they are possibly involved in transcription regulation.

Contact: jnagaraju{at}cdfd.org.in

Supplementary information: Architecture, identifiers and annotations of EPRs; search parameters, distribution and sequence alignment; 2D structure prediction and disulfide connectivity are provided as pdf files S1–S8, at Bioinformatics online.

Received on April 4, 2006; revised on June 1, 2006; accepted on June 20, 2006

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