Parameters:
Item Compartment Name Parameter Units Comment Scenarios: a_01_LowImpB a_02_HighImpB a_03_MoreNPC b_01_LowImpB b_02_HighImpB b_03_MoreNPC
Description: With RanGTP regeneration Without RanGTP regeneration
Low ImpB Increase ImpB Increase #NPC Low ImpB Increase ImpB Increase #NPC
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 0 0 0 0 0 0
Species C Ran·GTP(n) Value uM 3 3 3 3 3 3
For the first scenario, amounts to count:
Species C NPC(c) Value uM 6000 0.01 0.01 0.1 0.01 0.01 0.1
Species C NPC Value uM Inner capacity 600000 1 1 10 1 1 10
Species C NPC(n) Value uM 6000 0.01 0.01 0.1 0.01 0.01 0.1
Species C ImpB(c) Value uM 0.05 10 10 0.05 10 10
Species C ImpB(n) Value uM 0 0 0 0 0 0
Species C ImpA(c) Value uM 0.5 0.5 0.5 0.5 0.5 0.5
Species C ImpA(n) Value uM 0.5 0.5 0.5 0.5 0.5 0.5
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·NPC kf 1/s 1e-2 1e-2 1e-2 1e-2 1e-2 1e-2
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 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 1e-2 1e-2 1e-2 0 0 0
For uploaded results, see:
https://numpde.github.io/nct1/code/20211018-Appli/checkpoint/