Binding Site Prediction for Protein-Protein Interactions and Novel Motif Discovery using Re-occurring Polypeptide Sequences

Table 10 Top ranking co-occurring domains in novel yeast interactions.

Domain Name A	Domain Name B	DOMINE	Number of sites
Actin-like	Retrotransposon Ty1 A, N-terminal	Known	360
Serine/threonine-protein kinase-like domain	Serine/threonine-protein kinase-like domain	Known	221
Protein kinase-like domain	Serine/threonine-protein kinase-like domain	Novel	170
Sugar/inositol transporter	Protein kinase-like domain	Novel	106
Ras GTPase	Serine/threonine-protein kinase-like domain	Known	99
Ras GTPase	Ras GTPase	Known	95
Ras GTPase	Small GTPase, Rho type	Known	57
ATPase, AAA-type, core	ATPase, AAA-type, core	Known	56
ATPase, AAA-type, core	ATPase, AAA-type, conserved site	Novel	52
Sugar/inositol transporter	Serine/threonine-protein kinase-like domain	Known	51

Out of the 100 most frequently occurring domain pairs, 55% are reported in the DOMINE database.

ISSN: 1471-2105