Open Access Highly Accessed Research article

Low-complexity regions within protein sequences have position-dependent roles

Alain Coletta123*, John W Pinney4, David Y Weiss Solís56, James Marsh2, Steve R Pettifer2 and Teresa K Attwood1

Author Affiliations

1 Faculty of Life Sciences, University of Manchester, Manchester M13 9PL, UK

2 School of Computer Science, University of Manchester, Manchester M13 9PL, UK

3 Switch Laboratory, Department of Applied Biological Sciences, Vrije Universiteit Brussel, 1050, Belgium

4 Centre for Bioinformatics, Division of Molecular Biosciences, Imperial College London, London SW7 2AZ, UK

5 Institute of Interdisciplinary Research (IRIBHM), School of Medicine, Free University of Brussels, 1070 Brussels, Belgium

6 IRIDIA-CoDE, Université Libre de Bruxelles, Ave. F. Roosevelt 50, 1050 Brussels, Belgium

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BMC Systems Biology 2010, 4:43  doi:10.1186/1752-0509-4-43

Published: 13 April 2010

Additional files

Additional file 1:

Figure S1: LCR distributions in PPI datasets. PPI datasets overlap between the HC, DIPv, FYI and BioGrid datasets, and the distribution of LCRs among them.

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Additional file 2:

Figure S2: Mean and standard deviation from UniProt entropy distributions. The entropy distributions mean grows asymptotically towards the Hmax value as the window regions increase and sequences within them approach random states. The entropy distributions standard deviation decreases as longer sequences become more homogeneous.

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Additional file 3:

Figure S3: Computing random LCR positions. Method to compute random LCR positions. The same process is repeated for each LCR in S. cerevisiae: LCRs (shown in red) are extracted from their corresponding protein sequence and re-inserted randomly 1000 times. Each time, the normalised centre position is included into the random distribution.

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Additional file 4:

Figure S4: LCR centre positions distribution. Distributions of LCR centre positions and randomly replaced LCR centre positions. The random distribution extremities show the expected frequency decrease, while the original distribution on top, appears to be enriched with extremity LCRs.

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Additional file 5:

Table S1: LCR distributions in PPI datasets. LCRs are approximately equally distributed across the high-confidence datasets (HC, FYI and DIPv). Enrichment is defined as (Observed - Expected)/Expected.

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