Parameters:
Item Compartment Name Parameter Units Comment Scenarios: a_Baseline b_LowImpB c_MoreNPC d_HighImpA d_LowImpA e_NoEnergy
Description: With RanGTP regeneration No RanGTP regeneration
Physiological Low ImpB Increase #NPC High ImpA Low ImpA
Compartment C Value picoliter C = Vol of cytoplasm = Vol of nucleus 1 1 1 1 1 1
Initial values
Species C CAS(c) Value uM 1 1 1 1 1 1
Species C CAS(n) Value uM 1 1 1 1 1 1
Species C Ran·GTP(n) Value uM 3 3 3 3 3 3
For the first scenario, equals to count:
Species C NPC(c) Value uM 6000 0.01 0.01 0.1 0.01 0.01 0.01
Species C NPC Value uM Inner capacity 600000 1 1 10 1 1 1
Species C NPC(n) Value uM 6000 0.01 0.01 0.1 0.01 0.01 0.01
Species C ImpB(c) Value uM 5 0.5 5 5 5 5
Species C ImpB(n) Value uM 5 0.5 5 5 5 5
Species C ImpA(c) Value uM 0.4 0.4 0.4 4 0.04 0.4
Species C ImpA(n) Value uM 0.4 0.4 0.4 4 0.04 0.4
Kinetic constants
Reaction hydrolysis of Ran·GTP·ImpB·NPC kf 1/s 0.1 0.1 0.1 0.1 0.1 0.1
Reaction hydrolysis of ImpA·CAS·Ran·GTP(c) kf 1/s 0.1 0.1 0.1 0.1 0.1 0.1
Reaction hydrolysis of ImpA·CAS·Ran·GTP·NPC kf 1/s 0.1 0.1 0.1 0.1 0.1 0.1
Reaction CAS with Ran kf 1/uM/s 0.01 0.01 0.01 0.01 0.01 0.01
Reaction CAS with Ran kr 1/s 0.015 0.015 0.015 0.015 0.015 0.015
Reaction CAS with NPC(c) kf 1/uM/s 1e-3 1e-3 1e-3 1e-3 1e-3 1e-3
Reaction CAS with NPC(c) kr 1/s 1e-4 1e-4 1e-4 1e-4 1e-4 1e-4
Reaction CAS with NPC(n) kf 1/uM/s 1e-3 1e-3 1e-3 1e-3 1e-3 1e-3
Reaction CAS with NPC(n) kr 1/s 1e-4 1e-4 1e-4 1e-4 1e-4 1e-4
Reaction CAS·Ran with ImpA kf 1/uM/s 0.1 0.1 0.1 0.1 0.1 0.1
Reaction CAS·Ran with ImpA kr 1/s kD = 1nM 1e-4 1e-4 1e-4 1e-4 1e-4 1e-4
Reaction Complex CAS with NPC(c) kf 1/uM/s "Complex CAS" = ImpA·CAS·Ran·GTP 1e-3 1e-3 1e-3 1e-3 1e-3 1e-3
Reaction Complex CAS with NPC(c) kr 1/s 1e-5 1e-5 1e-5 1e-5 1e-5 1e-5
Reaction Complex CAS with NPC(n) kf 1/uM/s 1e-3 1e-3 1e-3 1e-3 1e-3 1e-3
Reaction Complex CAS with NPC(n) kr 1/s 1e-5 1e-5 1e-5 1e-5 1e-5 1e-5
Reaction Replenish NLS kf 1/s 0 0 0 0 0 0
Reaction Passive diffusion k_diff 1/s 0 0 0 0 0 0
Reaction Ran gradient k_pump 1/s 0.1 0.1 0.1 0.1 0.1 0
For uploaded results, see:
https://numpde.github.io/nct1/code/20211018-Appli/checkpoint/