Skip to main content

Table 4 The transitions of the model.

From: Application of Petri net based analysis techniques to signal transduction pathways

ID Transition name Biological event
1 MATalpha_cell(surroundings) a near MATα cell secretes its mating pheromone
2 binding_factor _to_receptor the α-factor binds to the Ste2 receptor
3 receptor_synthesis synthesis of the cell surface receptor Sst2
4 receptor _conformation_change conformation change of the receptor
5 division(in_alpha_subunit:GDP->GTP) dissociation of the Gα subunit of the G-protein
6 hydrolysis_GTP->GDP hydrolysis reassociates Gα with Gβγ
7 interact_through_Far1 Gβγ interacts Far1 transmitted with Cdc24
8 Cdc42:GDP->GTP Cdc24 supported activation of Cdc42
9 active_Cdc42_constitutive_at_pm constitutive active Cdc42 attending the processes
10 binding_to_Ste20 Gβγ binds Ste20
11 Ste20_activated Cdc42 at plasma membrane activates Ste20
12 binding_to_Ste5 Gβγ binds Ste5
13 Ste5_binds_Ste11 Ste5 binds Ste11
14 Fus3_synth synthesis of kinase Fus3
15 Fus3_binds_Ste7 Ste7 binds Fus3
16 complex-formation Ste5/Ste11 binds Ste7/Fus3
17 Ste20_phos_Ste11 phosphorylation of Ste11 by Ste20
18 Ste11_phos_Ste7 phosphorylation of Ste7 by Ste11
19 Ste7_phos_Fus3 phosphorylation of Fus3 by Ste7
20 Fus3PP-release release of activated Fus3 out of the MAPK complex
21 binding_free_Fus3 remaining MAPK complex binds Fus3
22 Ste12_inhibit _phos phosphorylation of Ste12 inhibitors Dig1/Dig2 by Fus3PP
23 Ste12-release release of Ste12 out of the repression complex
24 Ste12_phos phosphorylation of Ste12 by Fus3PP
25 transcr_activation transcription activation of pheromone regulated genes
26 Fus3PP_dephos dephosphorylation of Fus3PP by Msg5
27 repression_through_Fus3 Ste12 repression through inactive Fus3 and Dig1/Dig2
28 cell_fusion processes leading to the fusion of the two haploid cells
29 transport_out_of_cell Bar1 transport into the cell environment
30 factor _destruction Bar1 transmitted destruction of the α-factor
31 Far1_phos phosphorylation of Far1 by Fus3PP
32 cell_cycle_arrest in_G1 Far1 caused arrest in the cell cycle phase G1
33 transport_out_of_nucleus Far1 transport out of the nucleus
34 Sst2_phos phosphorylation of Sst2 by Fus3PP
35 transport_out_of_nucleus Sst2 transport out of the nucleus
36 accelerated_hydr_GTP->GDP accelerated hydrolysis reassociates the G-protein
37 Ste11_neg_phos Fus3PP labels the MAPK complex at Ste11 for degradation
38 degradation degradation of the MAPK complex
39 Ste7_neg_phos Fus3PP labels the MAPK complex at Ste7 for degradation
40 Ste7_phos_Kss1 phosphorylation of Kss1 by Ste7
41 accelerated-dephos_Kss1 deactivation of phosphorylated Kss1 by Fus3PP
42 Kss1_dephos dephosphorylation of phosphorylated Kss1 by Msg5
43 repression_through_Kss1 Ste12 repression through inactive Kss1 and Dig1/Dig2
44 techn_input technical: the repressed Ste12 complex assumed to be present
45 Akr1_synthesis synthesis of Akr1
46 Akr1_binds_Yck1/Yck2 Akr1 binds Yck1/Yck2
47 receptor_phos labelling of Ste2 for degradation
48 ubiquit_endocytosis ubiquitination and endocytosis of the receptor
  1. The transitions of the model, see Figure 7, each listed with its name, its ID and the biological event represented by this node.