Skip to main content

Table 2 State Space Transformation for scaffold with three binding domains. Transformation for a scaffold protein with 3 binding domains. The transformation is hierarchically structured and introduces macroscopic quantities like the overall concentration of R and the levels of occupancy of each domain (z0 to z3), mesoscopic quantities describing pairs of concurrently occupied domains (z4 to z6) and microscopic quantities corresponding to individual multiprotein species (z7).

From: A domain-oriented approach to the reduction of combinatorial complexity in signal transduction networks

z0 = R[0, 0, 0] + R[1, 0, 0] + R[0, 1, 0] + R[0, 0, 1] + R[1, 1, 0] + R[1, 0, 1] + R[0, 1, 1] + R[1, 1, 1]     (52a)

z1 = R[1, 0, 0] + R[1, 1, 0] + R[1, 0, 1] + R[1, 1, 1]     (52b)

z2 = R[0, 1, 0] + R[1, 1, 0] + R[0, 1, 1] + R[1, 1, 1]     (52c)

z3 = R[0, 0, 1] + R[1, 0, 1] + R[0, 1, 1] + R[1, 1, 1]     (52d)

z4 = R[1, 1, 0] + R[1, 1, 1]     (52e)

z5 = R[1, 0, 1] + R[1, 1, 1]     (52f)

z6 = R[0, 1, 1] + R[1, 1, 1]     (52g)

z7 = R[1, 1, 1]     (52h)

Back to article page

BMC Bioinformatics

ISSN: 1471-2105

Contact us