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FindSim_compositeModel_base50Merge92_MergeHomer__Mergebarrestin.g
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FindSim_compositeModel_base50Merge92_MergeHomer__Mergebarrestin.g
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//genesis
// kkit Version 11 flat dumpfile
// Saved on 100
include kkit {argv 1}
FASTDT = 0.001
SIMDT = 0.001
CONTROLDT = 0.1
PLOTDT = 0.1
MAXTIME = 100
TRANSIENT_TIME = 2
VARIABLE_DT_FLAG = 0
DEFAULT_VOL = 1.04904995573e-15
VERSION = 11.0
setfield /file/modpath value ~/scripts/modules
kparms
//genesis
initdump -version 3 -ignoreorphans 1
simobjdump table input output alloced step_mode stepsize x y z
simobjdump xtree path script namemode sizescale
simobjdump xcoredraw xmin xmax ymin ymax
simobjdump xtext editable
simobjdump xgraph xmin xmax ymin ymax overlay
simobjdump xplot pixflags script fg ysquish do_slope wy
simobjdump group xtree_fg_req xtree_textfg_req plotfield expanded movealone \
link savename file version md5sum mod_save_flag x y z
simobjdump geometry size dim shape outside xtree_fg_req xtree_textfg_req x y z
simobjdump kpool DiffConst CoInit Co n nInit mwt nMin vol slave_enable \
geomname xtree_fg_req xtree_textfg_req x y z
simobjdump kreac kf kb notes xtree_fg_req xtree_textfg_req x y z
simobjdump kenz CoComplexInit CoComplex nComplexInit nComplex vol k1 k2 k3 \
keepconc usecomplex notes xtree_fg_req xtree_textfg_req link x y z
simobjdump stim level1 width1 delay1 level2 width2 delay2 baselevel trig_time \
trig_mode notes xtree_fg_req xtree_textfg_req is_running x y z
simobjdump xtab input output alloced step_mode stepsize notes editfunc \
xtree_fg_req xtree_textfg_req baselevel last_x last_y is_running x y z
simobjdump kchan perm gmax Vm is_active use_nernst notes xtree_fg_req \
xtree_textfg_req x y z
simobjdump transport input output alloced step_mode stepsize dt delay clock \
kf xtree_fg_req xtree_textfg_req x y z
simobjdump proto x y z
simundump group /kinetics/compartment_1 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2748 5101 0
simundump geometry /kinetics/geometry[1] 0 1.04904995573e-15 3 sphere "" white black -2750 5101 0
simundump geometry /kinetics/geometry[1] 0 1.04904995573e-15 3 sphere "" white black -2750 5101 0
simundump geometry /kinetics/geometry 0 1.74841659288e-21 3 sphere "" white black -2750 5101 0
simundump group /kinetics/compartment_1 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PKC 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PLA2 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PLCbeta 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/mGluRAntag 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/MAPK 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/Ras 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/EGFR 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/Sos 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PLC_g 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/CaMKII 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/CaM 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PP1 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PP2B 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PKA 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/AC 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/mGluR 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/Gprotein 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/Phosphatase 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/Ca 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/PI3K_activation 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/AKT_activation 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/TrKB 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/mTORC1 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/S6Kinase 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/4E_BP 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/43S_complex 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/protein 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/BDNF 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/CaMKIII 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/Translation_initiation 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/Translation_elongation 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/40S 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/TSC1_TSC2 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/HomerPIKE 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump group /kinetics/barr2_signaling 0 blue green x 0 0 "" defaultfile \
defaultfile.g 0 0 0 -2753 5101 0
simundump kpool /kinetics/PKC/PKC_Ca 0 0.0 0 0 0 2.35064660655e-11 0 0 631752.727399 0 /kinetics/geometry[1] red black -4 1 0
simundump kpool /kinetics/PKC/PKC_DAG_AA_p 0 0.0 0 0 0 3.1042223182e-12 0 0 631752.727399 0 /kinetics/geometry[1] cyan blue 0 5 0
simundump kpool /kinetics/PKC/PKC_Ca_AA_p 0 0.0 0 0 0 1.10556727295e-10 0 0 631752.727399 0 /kinetics/geometry[1] orange blue 0 6 0
simundump kpool /kinetics/PKC/PKC_Ca_memb_p 0 0.0 0 0 0 8.77883589992e-12 0 0 631752.727399 0 /kinetics/geometry[1] pink blue -2 6 0
simundump kpool /kinetics/PKC/PKC_DAG_memb_p 0 0.0 0 0 0 5.9606922751e-15 0 0 631752.727399 0 /kinetics/geometry[1] yellow blue -1 5 0
simundump kpool /kinetics/PKC/PKC_basal_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] pink blue -4 5 0
simundump kpool /kinetics/PKC/PKC_AA_p 0 0.0 0 0 0 1.14557827899e-11 0 0 631752.727399 0 /kinetics/geometry[1] cyan blue 1 6 0
simundump kpool /kinetics/PKC/PKC_Ca_DAG 0 0.0 0 0 0 5.34662862407e-17 0 0 631752.727399 0 /kinetics/geometry[1] white blue 0 1 0
simundump kpool /kinetics/PKC/PKC_DAG 0 0.0 0 0 0 7.33475445722e-11 0 0 631752.727399 0 /kinetics/geometry[1] white blue 0 -1 0
simundump kpool /kinetics/PKC/PKC_DAG_AA 0 0.0 0 0 0 1.5912798282e-13 0 0 631752.727399 0 /kinetics/geometry[1] white blue 0 0 0
simundump kpool /kinetics/PKC/PKC_cytosolic 0 0.0 0 0 0 631752.727399 0 0 631752.727399 0 /kinetics/geometry[1] white blue -6 0 0
simundump kpool /kinetics/PKC/DAG 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] green black 0 -7 0
simundump kpool /kinetics/PKC/Arachidonic_Acid 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] darkgreen black -3 -9 0
simundump kpool /kinetics/PKC/PKC_active 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] red black 0 9 0
simundump kpool /kinetics/PLA2/PLA2_cytosolic 0 0.0 0 0 0 252701.090961 0 0 631752.727399 0 /kinetics/geometry[1] yellow darkgreen -11 -8 0
simundump kpool /kinetics/PLA2/PLA2_Ca_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] yellow darkgreen -8 -11 0
simundump kpool /kinetics/PLA2/PIP2_PLA2_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] cyan darkgreen -8 -6 0
simundump kpool /kinetics/PLA2/PIP2_Ca_PLA2_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] cyan darkgreen -8 -7 0
simundump kpool /kinetics/PLA2/DAG_Ca_PLA2_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] pink darkgreen -8 -10 0
simundump kpool /kinetics/PLA2/APC 0 0.0 0 0 0 18952581.822 0 0 631752.727399 4 /kinetics/geometry[1] yellow darkgreen -8 -9 0
simundump kpool /kinetics/PLA2/PLA2_p_Ca 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] orange darkgreen -7 -12 0
simundump kpool /kinetics/PLA2/PLA2_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] orange darkgreen -9 -14 0
simundump kpool /kinetics/MAPK/MAPK_p_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] orange yellow 17 -11 0
simundump kpool /kinetics/PI3K_activation/temp_PIP2 0 0.0 0 0 0 1579381.8185 0 0 631752.727399 4 /kinetics/geometry[1] green black -15 -7 0
simundump kpool /kinetics/PI3K_activation/IP3 0 0.0 0 0 0 461179.491 0 0 631752.727399 0 /kinetics/geometry[1] pink black 0 -4 0
simundump kpool /kinetics/mGluR/Glutamate 0 0.0 0 0 0 0.0 0 0 631752.727399 4 /kinetics/geometry[1] green black 0 13 0
simundump kpool /kinetics/PLCbeta/PLC 0 0.0 0 0 0 505402.181919 0 0 631752.727399 0 /kinetics/geometry[1] cyan maroon 10 -16 0
simundump kpool /kinetics/PLCbeta/Inositol 0 0.0 0 0 0 0.0 0 0 631752.727399 4 /kinetics/geometry[1] green maroon 4 -8 0
simundump kpool /kinetics/PC 0 0.0 0 0 0 0.0 0 0 1.05292121233 4 /kinetics/geometry green maroon 4 -7 0
simundump kpool /kinetics/PLCbeta/PLC_Ca 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] cyan maroon 7 -12 0
simundump kpool /kinetics/PLCbeta/PLC_Ca_Gq 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] cyan maroon 10 -13 0
simundump kpool /kinetics/PLCbeta/PLC_Gq 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] cyan maroon 15 -13 0
simundump kpool /kinetics/PI3K_activation/PIP2 0 0.0 0 0 0 6317527.27399 0 0 631752.727399 4 /kinetics/geometry[1] green black 3 -6 0
simundump kpool /kinetics/Gprotein/BetaGamma 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] yellow black 15 -2 0
simundump kpool /kinetics/Gprotein/G_pGTP 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] red black 7 -7 0
simundump kpool /kinetics/Gprotein/G_pGDP 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] yellow black 13 -5 0
simundump kpool /kinetics/Gprotein/G_GDP 0 0.0 0 0 0 631752.727399 0 0 631752.727399 0 /kinetics/geometry[1] yellow blue 10 -2 0
simundump kpool /kinetics/mGluR/mGluR 0 0.0 0 0 0 189525.81822 0 0 631752.727399 0 /kinetics/geometry[1] green blue 6 -1 0
simundump kpool /kinetics/mGluR/Rec_Glu 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] green blue 5 -3 0
simundump kpool /kinetics/mGluR/Rec_Gq 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] green blue 4 0 0
simundump kpool /kinetics/mGluR/Rec_Glu_Gq 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] orange blue 4 -5 0
simundump kpool /kinetics/mGluRAntag/mGluRAntag 0 0.0 0 0 0 0.0 0 0 631752.727399 4 /kinetics/geometry[1] seagreen blue 0 -2 0
simundump kpool /kinetics/mGluRAntag/Blocked_Rec_Gq 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] seagreen blue 2 -5 0
simundump kpool /kinetics/MAPK/craf_1 0 0.0 0 0 0 126350.545477 0 0 631752.727399 0 /kinetics/geometry[1] pink brown 6 8 0
simundump kpool /kinetics/MAPK/craf_1_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] pink brown 9 7 0
simundump kpool /kinetics/MAPK/MAPKK 0 0.0 0 0 0 113715.490931 0 0 631752.727399 0 /kinetics/geometry[1] pink brown 6 3 0
simundump kpool /kinetics/MAPK/MAPK 0 0.0 0 0 0 227430.981865 0 0 631752.727399 0 /kinetics/geometry[1] pink brown 6 1 0
simundump kpool /kinetics/MAPK/craf_1_p_p 0 0.0 0 0 0 0.0 0 0 631752.727399 0 /kinetics/geometry[1] hotpink brown 12 7 0
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addmsg /kinetics/PKC/PKC_DAG_AA_p /kinetics/PKC/PKC_active SUMTOTAL n nInit
addmsg /kinetics/PKC/PKC_Ca_memb_p /kinetics/PKC/PKC_active SUMTOTAL n nInit
addmsg /kinetics/PKC/PKC_Ca_AA_p /kinetics/PKC/PKC_active SUMTOTAL n nInit
addmsg /kinetics/PKC/PKC_DAG_memb_p /kinetics/PKC/PKC_active SUMTOTAL n nInit
addmsg /kinetics/PKC/PKC_basal_p /kinetics/PKC/PKC_active SUMTOTAL n nInit
addmsg /kinetics/PKC/PKC_AA_p /kinetics/PKC/PKC_active SUMTOTAL n nInit
addmsg /kinetics/CaMKII/CaMKII_CaM /kinetics/CaMKII/tot_CaM_CaMKII SUMTOTAL n nInit
addmsg /kinetics/CaMKII/CaMKII_thr286_p_CaM /kinetics/CaMKII/tot_CaM_CaMKII SUMTOTAL n nInit
addmsg /kinetics/CaMKII/CaMKII_thr286 /kinetics/CaMKII/tot_autonomous_CaMKII SUMTOTAL n nInit
addmsg /kinetics/CaMKII/CaMKII_p_p_p /kinetics/CaMKII/tot_autonomous_CaMKII SUMTOTAL n nInit
addmsg /kinetics/PP2B/CaMCa4_CaNAB /kinetics/CaM/CaM(Ca)n_CaNAB SUMTOTAL n nInit
addmsg /kinetics/PP2B/CaMCa3_CaNAB /kinetics/CaM/CaM(Ca)n_CaNAB SUMTOTAL n nInit
addmsg /kinetics/PP2B/CaMCa2_CaNAB /kinetics/CaM/CaM(Ca)n_CaNAB SUMTOTAL n nInit
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addmsg /kinetics/PKC/PKC_cytosolic /kinetics/PKC/PKC_act_by_Ca SUBSTRATE n
addmsg /kinetics/PKC/PKC_act_by_Ca /kinetics/PKC/PKC_cytosolic REAC A B
addmsg /kinetics/Ca/Ca /kinetics/PKC/PKC_act_by_Ca SUBSTRATE n
addmsg /kinetics/PKC/PKC_act_by_Ca /kinetics/Ca/Ca REAC A B
addmsg /kinetics/PKC/PKC_Ca /kinetics/PKC/PKC_act_by_Ca PRODUCT n
addmsg /kinetics/PKC/PKC_act_by_Ca /kinetics/PKC/PKC_Ca REAC B A
addmsg /kinetics/PKC/PKC_Ca /kinetics/PKC/PKC_act_by_DAG SUBSTRATE n
addmsg /kinetics/PKC/PKC_act_by_DAG /kinetics/PKC/PKC_Ca REAC A B
addmsg /kinetics/PKC/DAG /kinetics/PKC/PKC_act_by_DAG SUBSTRATE n
addmsg /kinetics/PKC/PKC_act_by_DAG /kinetics/PKC/DAG REAC A B
addmsg /kinetics/PKC/PKC_Ca_DAG /kinetics/PKC/PKC_act_by_DAG PRODUCT n
addmsg /kinetics/PKC/PKC_act_by_DAG /kinetics/PKC/PKC_Ca_DAG REAC B A
addmsg /kinetics/PKC/PKC_Ca /kinetics/PKC/PKC_Ca_to_memb SUBSTRATE n
addmsg /kinetics/PKC/PKC_Ca_to_memb /kinetics/PKC/PKC_Ca REAC A B
addmsg /kinetics/PKC/PKC_Ca_memb_p /kinetics/PKC/PKC_Ca_to_memb PRODUCT n
addmsg /kinetics/PKC/PKC_Ca_to_memb /kinetics/PKC/PKC_Ca_memb_p REAC B A
addmsg /kinetics/PKC/PKC_Ca_DAG /kinetics/PKC/PKC_DAG_to_memb SUBSTRATE n
addmsg /kinetics/PKC/PKC_DAG_to_memb /kinetics/PKC/PKC_Ca_DAG REAC A B
addmsg /kinetics/PKC/PKC_DAG_memb_p /kinetics/PKC/PKC_DAG_to_memb PRODUCT n
addmsg /kinetics/PKC/PKC_DAG_to_memb /kinetics/PKC/PKC_DAG_memb_p REAC B A
addmsg /kinetics/PKC/PKC_Ca /kinetics/PKC/PKC_act_by_Ca_AA SUBSTRATE n
addmsg /kinetics/PKC/PKC_act_by_Ca_AA /kinetics/PKC/PKC_Ca REAC A B
addmsg /kinetics/PKC/Arachidonic_Acid /kinetics/PKC/PKC_act_by_Ca_AA SUBSTRATE n
addmsg /kinetics/PKC/PKC_act_by_Ca_AA /kinetics/PKC/Arachidonic_Acid REAC A B
addmsg /kinetics/PKC/PKC_Ca_AA_p /kinetics/PKC/PKC_act_by_Ca_AA PRODUCT n
addmsg /kinetics/PKC/PKC_act_by_Ca_AA /kinetics/PKC/PKC_Ca_AA_p REAC B A
addmsg /kinetics/PKC/PKC_DAG_AA /kinetics/PKC/PKC_act_by_DAG_AA SUBSTRATE n
addmsg /kinetics/PKC/PKC_act_by_DAG_AA /kinetics/PKC/PKC_DAG_AA REAC A B
addmsg /kinetics/PKC/PKC_DAG_AA_p /kinetics/PKC/PKC_act_by_DAG_AA PRODUCT n
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