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MOTIVATION: We noted that the sumoylation site in C/EBP homologues is conserved beyond the canonical consensus sequence for sumoylation. Therefore, we investigated whether this pattern might define a more general protein motif. RESULTS: We undertook a survey of the human proteome using a regular expression based on the C/EBP motif. This revealed significant enrichment of the motif using different Gene Ontology terms (e.g. 'transcription') that pertain to the nucleus. When considering requirements for the motif to be functional (evolutionary conservation, structural accessibility of the motif and proper cell localization of the protein), more than 130 human proteins were retrieved from the UniProt/Swiss-Prot database. These candidates were particularly enriched in transcription factors, including FOS, JUN, Hif-1alpha, MLL2 and members of the KLF, MAF and NFATC families; chromatin modifiers like CHD-8, HDAC4 and DNA Top1; and the transcriptional regulatory kinases HIPK1 and HIPK2. The KEPEmotif appears to be restricted to the metazoan lineage and has three length variants-short, medium and long-which do not appear to interchange.

Original publication

DOI

10.1093/bioinformatics/btn594

Type

Journal article

Journal

Bioinformatics

Publication Date

01/01/2009

Volume

25

Pages

1 - 5

Keywords

Amino Acid Motifs, Amino Acid Sequence, Animals, Chromatin, Conserved Sequence, Databases, Protein, Gene Expression Regulation, Humans, Molecular Sequence Data, Mutation, Nucleoproteins, Proteome, Saccharomyces cerevisiae, Small Ubiquitin-Related Modifier Proteins, Transcription Factors