Table 1.
Homologous complexes identified in the manually curated protein complex data set, with a description of the general function and specificity of each complex
|
Complex name |
Function |
Specific to |
|---|---|---|
| Pyruvate dehydrogenase | Carbohydrate oxidation in TCA | Pyruvate |
| 2-Oxoglutarate dehydrogenase | Carbohydrate oxidation in TCA | 2-Oxo-glutarate |
| Ftase | Protein prenytransferase | C15 isoprenoid, Rho and Ras small, GTPases, laminin, heterotrimeric G proteins, etc. |
| GGTase I | ″ | C20 isoprenoid, Rho and Ras small GTPases |
| RabGGTase | ″ | C20 isoprenoid, Rab small GTPases |
| SBF complex | Transcriptional activation during cell cycle progression | Transcription of G1 cyclins, cell wall biosynthesis genes, etc. |
| MBF complex | ″ | Transcription of S-phase cyclins, genes required for DNA synthesis, etc. |
| SWI/SNF complex | Transcriptional activation and repression | Not essential for growth. Transcription of genes involved in mating type switching, sucrose fermentation |
| Chromatin remodelling | ||
| RSC complex | ″ | Essential for mitotic growth. Active in chromosomal segregation |
| Organization of cytoskeleton. Transcription from RNA | ||
| Pol. II promoters (uncertain) | ||
| MSH2/MSH3 | DNA mismatch repair | Loops with two to eight unpaired bases, one-base insertion/deletion loops |
| MSH2/MSH6 | ″ | Base-base mismatches, one-base insertion/deletion loops |
| AP-1 complex | Coat protein binding | Clathrin, endosome to Golgi transport |
| Ap-2 complex | ″ | Clathrin, endocytosis at plasma membrane |
| AP-3 complex | Unknown | Unknown, transport to lysosome |
| B-COPI subcomplex
|
Coat protein binding
|
F-COPI coat
|
-
Further complexes from this data set that have some resemblance, but are below the score threshold considered by us, are discussed in the Supplementary Material. RabGGTase, the AP-complexes and COPI do not share components with any other complex, and as such are the result of complete duplications. All other complexes share at least one component and are the result of partial duplications.
