Evolutionarily conserved bias of amino-acid usage refines the definition of PDZ-binding motif

BMC Genomics

Table 1 GO terms over-represented in the proteins possessing PB motifs with the amino acids identified in Figure 4.

category: Molecular Function		WITH the AAs		WITHOUT the AAs
GO term	size	hit	p-value	hit	p-value
transmembrane transporter activity	880	86	4.06E-13	23	5.55E-02
signal transducer activity	2116	149	2.26E-10	53	1.05E-02
substrate-specific transporter activity	936	80	2.08E-09	24	6.09E-02
peptide binding	177	16	4.00E-03	7	4.49E-02
nucleoside-triphosphatase regulator activity	406	29	5.14E-03	10	2.14E-01

Significantly (p < 0.01) over-represented GO terms (Molecular Function) in the proteins possessing PB motif WITH the amino acids shown in Figure 4 are identified by web-based tool PIPE2. The identified GO terms are indicated in the 'GO term' column. The number of genes categorized in the GO terms among the proteins possessing PB motifs is indicated in the 'hit' column. The extent of statistical significance is indicated in the 'p-value' column. Although significantly over-represented GO terms were not detected in the proteins possessing PB motifs WITHOUT the amino acids shown in Figure 4, the number of genes and their p-values are also shown in the right side ('WITHOUT AAs' column) for comparison. The total number of genes in each category in the PIPE2 database is indicated in the 'size' column. AA; amino acid.

ISSN: 1471-2164