Intracellular Dissipative Structures (IDSs) - Molecular Theory of the Living Cell - page 261

Table 9.6 Examples of the nine classes of interactomes predicted in Table 9.5 .P protein,

¼

r RNA, and d DNA

¼ ¼

Examples
Equilibrium

Interactomes Dissipative

1. p-p Multisubunit protein complexes,

e.g., hemoglobin, cytochorme
C oxidase, ATP synthase

Interaction between two or more
metabolic pathways, e.g., between
glycolysis and oxidative
phosphorylation during glucose-
galctose shift (see Table 12.1 )

2. p-r RNA-binding proteins without

any catalytic activity,
e.g., Maxi-KH, PUF
(Lee and Schedl 2011)

RNA-binding proteins with catalytic
activity, e.g., DEAD/DEAH box,
Zinc knuckle (Lee and Schedl 2011),
RNA polymerases,
RNases, spliceosomes

3. p-d Transcription factors DNA polymease, transposase,

DNA ligase, DNA recombinase

4. r-p Same as p-r (?) RNA guide component of RNA-protein

complex catalyzing
posttranscriptional gene silencing
(PTGS) (Grishok et al. 2001)

5. d-p Mutant structural gene-protein

complex

Mutant regulatory gene-protein omplex
(?) DNA supercoil-induced protein
binding (see the TF-conformon
collision hypothesis , Sect. 8.3 )

6. r-r Double-stranded micro RNAs

(Grishok et al. 2001)

Ribozymes (Kruger et al. 1982; Wochner
et al. 2011; Tang and Breaker 2000)

7. r-d Riboswitches without catalysis Ribozymes

8. d-r Same as r-d (?) DNA supercoil-induced RNA binding or

RNA-conformon collision hypothesis
(?) akin to the TF-conformon collision
hypothesis described in Sect. 8.3

9. d-d Double-stranded DNA Conformon-conformon interactions

within DNA superstructures such
as supercoils (?)

have 18 cells or entries, and it is not known whether the equality of the dimension of
the tables is a pure coincidence or a consequence of some deep connection between
interactomes and molecular machines .