//genesis
// kkit Version 11 flat dumpfile
 
// Saved on Mon Feb 13 15:11:43 2006
 
include kkit {argv 1}
 
FASTDT = 0.0001
SIMDT = 0.01
CONTROLDT = 5
PLOTDT = 10
MAXTIME = 28800
TRANSIENT_TIME = 2
VARIABLE_DT_FLAG = 1
DEFAULT_VOL = 1.6667e-21
VERSION = 11.0
setfield /file/modpath value /home2/bhalla/scripts/modules
kparms
 
//genesis

initdump -version 3 -ignoreorphans 1
simobjdump doqcsinfo filename accessname accesstype transcriber developer \
  citation species tissue cellcompartment methodology sources \
  model_implementation model_validation x y z
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 geometry /kinetics/geometry 0 1.6667e-21 3 sphere "" white black \
  802 217 0
simundump kpool /kinetics/R 0 0 0.01 0.01 0.01 0.01 0 0 1 0 \
  /kinetics/geometry blue black 738 199 0
simundump kreac /kinetics/JAK_binding 0 100 0.05 "" white black 732 130 0
simundump kpool /kinetics/JAK 0 0 0.02 0.02 0.02 0.02 0 0 1 0 \
  /kinetics/geometry 0 black 753 199 0
simundump kpool /kinetics/RJ 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 26 black \
  739 79 0
simundump kpool /kinetics/IFNRJ 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 48 \
  black 702 80 0
simundump kpool /kinetics/IFN 0 0 0.01 0.01 0.01 0.01 0 0 1 4 \
  /kinetics/geometry 35 black 687 82 0
simundump kreac /kinetics/IFN_binding 0 20 0.02 "" white black 717 123 0
simundump kpool /kinetics/IFNRJ2 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 52 \
  black 671 77 0
simundump kreac /kinetics/IFNRJ_dimerisation 0 40 0.2 "" white black 696 41 0
simundump kreac /kinetics/IFNRJ_activation 0 0.005 0 "" white black 697 135 0
simundump kpool /kinetics/IFNRJ2* 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 62 \
  black 753 79 0
simundump kpool /kinetics/STAT1c 0 0 1 1 1 1 0 0 1 0 /kinetics/geometry 24 \
  black 622 -7 0
simundump kpool /kinetics/IFNRJ2*-STAT1c 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 12 black 702 -5 0
simundump kreac /kinetics/STAT1c_activation 0 0.4 0 "" white black 746 34 0
simundump kpool /kinetics/STAT1c* 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 0 \
  black 758 -5 0
simundump kreac /kinetics/STAT1c*_binding 0 5 0.5 "" white black 781 36 0
simundump kpool /kinetics/IFNRJ2*-STAT1c* 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 22 black 779 82 0
simundump kreac /kinetics/STAT1c*_dimerisation 0 20 0.1 "" white black 766 26 \
  0
simundump kpool /kinetics/STAT1c*-STAT1c* 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 52 black 737 -8 0
simundump kpool /kinetics/SHP-2 0 0 0.1 0.1 0.1 0.1 0 0 1 0 \
  /kinetics/geometry 45 black 575 85 0
simundump kpool /kinetics/IFNRJ2*-SHP-2 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 7 black 606 80 0
simundump kreac /kinetics/IFNRJ2*_dephosphorylation 0 0.003 0 "" white black \
  597 38 0
simundump kpool /kinetics/PPX 0 0 0.05 0.05 0.05 0.05 0 0 1 0 \
  /kinetics/geometry 45 black 648 -9 0
simundump kpool /kinetics/PPX-STAT1c* 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry \
  61 black 586 -11 0
simundump kreac /kinetics/STAT1c*_dephosphorylation 0 0.003 0 "" white black \
  641 33 0
simundump kpool /kinetics/PPX-STAT1c*-STAT1c* 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 6 black 672 -18 0
simundump kreac /kinetics/STAT1c*_dephosphorylation[1] 0 0.003 0 "" white \
  black 710 -53 0
simundump kreac /kinetics/STAT1c_nuclear_transport 0 0.005 0 "" white black \
  749 -66 0
simundump kpool /kinetics/STAT1n*-STAT1n* 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 62 black 735 -91 0
simundump kpool /kinetics/STAT1n* 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 0 \
  black 710 -114 0
simundump kreac /kinetics/STAT1n*_dimerisation 0 20 0.1 "" white black 735 \
  -153 0
simundump kpool /kinetics/PPN 0 0 0.06 0.06 0.06 0.06 0 0 1 0 \
  /kinetics/geometry 45 black 627 -119 0
simundump kreac /kinetics/PPN_binding 0 1 0.2 "" white black 641 -140 0
simundump kpool /kinetics/PPN-STAT1n* 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry \
  54 black 605 -118 0
simundump kreac /kinetics/STAT1n*_dephosphorylation 0 0.005 0 "" white black \
  610 -65 0
simundump kpool /kinetics/STAT1n 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 10 \
  black 578 -114 0
simundump kreac /kinetics/PPN_binding[1] 0 1 0.2 "" white black 684 -72 0
simundump kpool /kinetics/PPN-STAT1n*-STAT1n* 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 54 black 685 -110 0
simundump kreac /kinetics/STAT1n*_dephosphorylation[1] 0 0.005 0 "" white \
  black 649 -63 0
simundump kreac /kinetics/STAT1n_cytoplasmic_transport 0 0.05 0 "" white \
  black 590 -53 0
simundump kreac /kinetics/mRNAn_cytoplasmic_transport 0 0.001 0 "" white \
  black 824 -64 0
simundump kpool /kinetics/Transcription_complex 0 0 0.001 0.001 0.001 0.001 0 \
  0 1 4 /kinetics/geometry white black 807 -135 0
simundump kenz /kinetics/Transcription_complex/DNA 0 0 0 0 0 1 0.125 0.04 \
  0.01 0 1 "" red white "" 807 -148 0
simundump kpool /kinetics/SOCS1 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 12 \
  black 825 197 0
simundump kpool /kinetics/SOCS1-IFNRJ2* 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 27 black 782 201 0
simundump kpool /kinetics/SOCS1-IFNRJ2*-STAT1c 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 27 black 689 196 0
simundump kreac /kinetics/SHP-2_binding[1] 0 1 0.2 "" white black 619 170 0
simundump kpool /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry 27 black 640 201 0
simundump kreac /kinetics/degradation 0 0.0005 0 "" white black 821 139 0
simundump kreac /kinetics/mRNA_deg 0 0.0005 0 "" white black 813 45 0
simundump kpool /kinetics/SOCS1_Deg 0 0 0 0 0 0 0 0 1 4 /kinetics/geometry \
  blue black 825 82 0
simundump kpool /kinetics/mRNA_remain 0 0 0 0 0 0 0 0 1 4 /kinetics/geometry \
  blue black 808 3 0
simundump kpool /kinetics/dup_STAT1n*-STAT1n* 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry blue black 763 -142 0
simundump kreac /kinetics/SOCS1_synthesis 0 0.01 0 "" white black 823 30 0
simundump kreac /kinetics/IFN-R_bind 0 20 0.02 "" white black 719 143 0
simundump kpool /kinetics/IFNR 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry blue \
  black 724 199 0
simundump kreac /kinetics/IFNR-JAK_bind 0 100 0.05 "" white black 746 143 0
simundump kpool /kinetics/IFNRJ_ 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry blue \
  black 715 79 0
simundump kreac /kinetics/IFNRJ2*-STAT1c_bind_SHP2 0 1 0.2 "" white black 623 \
  49 0
simundump kpool /kinetics/IFNRJ2*-STAT1c-SHP2 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry blue black 648 87 0
simundump kreac /kinetics/dephospo_IFNRJ2* 0 0.003 0 "" white black 643 167 0
simundump kpool /kinetics/Transcription_comp2 0 0 0.001 0.001 0.001 0.001 0 0 \
  1 4 /kinetics/geometry blue black 785 -116 0
simundump kenz /kinetics/Transcription_comp2/DNA 0 0 0 0 0 1 0.125 0.04 0.01 \
  0 1 "" red blue "" 784 -110 0
simundump kpool /kinetics/mRNAVn 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry blue \
  black 798 -94 0
simundump kreac /kinetics/cyto_trans2 0 0.001 0 "" white black 799 -56 0
simundump kpool /kinetics/mRNAVc 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry blue \
  black 799 -15 0
simundump kpool /kinetics/mRNAVc_dupli 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry \
  blue black 786 6 0
simundump kreac /kinetics/AV_formation 0 0.002 0 "" white black 801 27 0
simundump kpool /kinetics/AV 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry blue \
  black 805 202 0
simundump kreac /kinetics/AV_degdra 0 1e-05 0 "" white black 801 143 0
simundump kpool /kinetics/AV_degraded 0 0 0 0 0 0 0 0 1 4 /kinetics/geometry \
  blue black 798 97 0
simundump kreac /kinetics/mRNAVc_deg 0 0.002 0 "" white black 779 -51 0
simundump kpool /kinetics/mRNAVc_remain 0 0 0 0 0 0 0 0 1 4 \
  /kinetics/geometry blue black 775 -20 0
simundump kreac /kinetics/SOCS1_unbind 0 0.0005 0 "" white black 705 156 0
simundump kpool /kinetics/SOCS1-IFNR2*-SHP2 0 0 0 0 0 0 0 0 1 0 \
  /kinetics/geometry blue black 586 196 0
simundump kreac /kinetics/SOCS1_unbind[1] 0 0.0005 0 "" white black 604 125 0
simundump kreac /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 0 0.003 0 "" white black \
  684 173 0
simundump kreac /kinetics/STAT1c_binding[2] 0 8 0.8 "" white black 765 151 0
simundump kreac /kinetics/STAT1c_binding[1] 0 8 0.8 "" white black 709 29 0
simundump kreac /kinetics/unbind_SOCS1[2] 0 0.0005 0 "" white black 582 166 0
simundump kreac /kinetics/IFNRJ2*_dephospo 0 0.003 0 "" white black 666 148 0
simundump kreac /kinetics/PPX_binding[2] 0 1 0.2 "" white black 663 53 0
simundump kreac /kinetics/PPX_binding[1] 0 1 0.2 "" white black 629 -52 0
simundump kpool /kinetics/mRNASn 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry white \
  black 823 -104 0
simundump kpool /kinetics/mRNASc 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry 36 \
  black 813 -35 0
simundump kpool /kinetics/dup_mRNASc 0 0 0 0 0 0 0 0 1 0 /kinetics/geometry \
  blue black 825 -12 0
simundump kreac /kinetics/unbind_SOCS1[1] 0 0.0005 0 "" white black 790 162 0
simundump kreac /kinetics/SOCS1c_binding[2] 0 20 0.1 "" white black 759 125 0
simundump kreac /kinetics/SOCS1_binding[1] 0 20 0.1 "" white black 789 122 0
simundump kreac /kinetics/SOCS1_binding[3] 0 20 0.1 "" white black 584 150 0
simundump kreac /kinetics/SHP2_binding[2] 0 1 0.2 "" white black 616 157 0
simundump kreac /kinetics/SOCS1c_binding[4] 0 20 0.1 "" white black 667 127 0
simundump kreac /kinetics/STAT1c_binding[3] 0 8 0.8 "" white black 639 132 0
simundump kreac /kinetics/SHP-2_binding[3] 0 1 0.2 "" white black 680 23 0
simundump doqcsinfo /kinetics/doqcsinfo 0 SOCS1_knockout.g SOCS1_knockout \
  pathway "Prasoon Agarwal and Sharat J. Vayttaden, NCBS" "Yamada S, Shiono S, Joo A, Yoshimura A" \
  "FEBS Letters, (2003) 534:190-196." mouse Liver "Nucleus , cytoplasm" \
  "Quantitative match to experiments" \
  "<a href =http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12527385&query_hl=3&itool=pubm?cmded_DocSum>Yamada S et al. FEBS Letters 2003 Jan 16;534(1-3):190-6</a>" \
  "Exact GENESIS implementation" "Approximates original data " 769 219 0
simundump xgraph /graphs/conc1 0 0 28800 0 0.1 0
simundump xgraph /graphs/conc2 0 0 28800 0 0.0014 0
simundump xplot /graphs/conc1/SOCS1.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 12 0 0 1
simundump xplot /graphs/conc2/IFNRJ2*.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 62 0 0 1
simundump xplot /graphs/conc2/mRNASc.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 36 0 0 1
simundump xgraph /moregraphs/conc3 0 0 28800 0 0.05 0
simundump xgraph /moregraphs/conc4 0 0 28800 0 1 0
simundump xplot /moregraphs/conc3/STAT1c*-STAT1c*.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 52 0 0 1
simundump xplot /moregraphs/conc3/STAT1n.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 10 0 0 1
simundump xplot /moregraphs/conc4/STAT1c.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 24 0 0 1
simundump xplot /moregraphs/conc4/STAT1n*-STAT1n*.Co 3 524288 \
  "delete_plot.w <s> <d>; edit_plot.D <w>" 62 0 0 1
simundump xcoredraw /edit/draw 0 573 827 -155 221
simundump xtree /edit/draw/tree 0 \
  /kinetics/#[],/kinetics/#[]/#[],/kinetics/#[]/#[]/#[][TYPE!=proto],/kinetics/#[]/#[]/#[][TYPE!=linkinfo]/##[] \
  "edit_elm.D <v>; drag_from_edit.w <d> <S> <x> <y> <z>" auto 0.6
simundump xtext /file/notes 0 1
xtextload /file/notes \
"From Fig.15-63 of Molecular Biology of Cell by Alberts et al 4th ed." \
"Shows Jak-STAT pathway activated by alpha-Interferon." \
"" \
"Based on I Swameye et al PNAS, USA 2003, 100(3):1028-1033" \
""
addmsg /kinetics/JAK_binding /kinetics/R REAC A B 
addmsg /kinetics/IFN-R_bind /kinetics/R REAC A B 
addmsg /kinetics/R /kinetics/JAK_binding SUBSTRATE n 
addmsg /kinetics/JAK /kinetics/JAK_binding SUBSTRATE n 
addmsg /kinetics/RJ /kinetics/JAK_binding PRODUCT n 
addmsg /kinetics/JAK_binding /kinetics/JAK REAC A B 
addmsg /kinetics/IFNR-JAK_bind /kinetics/JAK REAC A B 
addmsg /kinetics/JAK_binding /kinetics/RJ REAC B A 
addmsg /kinetics/IFN_binding /kinetics/RJ REAC A B 
addmsg /kinetics/IFN_binding /kinetics/IFNRJ REAC B A 
addmsg /kinetics/IFNRJ_dimerisation /kinetics/IFNRJ REAC A B 
addmsg /kinetics/IFN_binding /kinetics/IFN REAC A B 
addmsg /kinetics/IFN-R_bind /kinetics/IFN REAC A B 
addmsg /kinetics/RJ /kinetics/IFN_binding SUBSTRATE n 
addmsg /kinetics/IFNRJ /kinetics/IFN_binding PRODUCT n 
addmsg /kinetics/IFN /kinetics/IFN_binding SUBSTRATE n 
addmsg /kinetics/IFNRJ_dimerisation /kinetics/IFNRJ2 REAC B A 
addmsg /kinetics/IFNRJ_activation /kinetics/IFNRJ2 REAC A B 
addmsg /kinetics/IFNRJ2*_dephosphorylation /kinetics/IFNRJ2 REAC B A 
addmsg /kinetics/IFNRJ2*_dephospo /kinetics/IFNRJ2 REAC B A 
addmsg /kinetics/dephospo_IFNRJ2* /kinetics/IFNRJ2 REAC B A 
addmsg /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 /kinetics/IFNRJ2 REAC B A 
addmsg /kinetics/IFNRJ2 /kinetics/IFNRJ_dimerisation PRODUCT n 
addmsg /kinetics/IFNRJ /kinetics/IFNRJ_dimerisation SUBSTRATE n 
addmsg /kinetics/IFNRJ_ /kinetics/IFNRJ_dimerisation SUBSTRATE n 
addmsg /kinetics/IFNRJ2 /kinetics/IFNRJ_activation SUBSTRATE n 
addmsg /kinetics/IFNRJ2* /kinetics/IFNRJ_activation PRODUCT n 
addmsg /kinetics/IFNRJ_activation /kinetics/IFNRJ2* REAC B A 
addmsg /kinetics/STAT1c_binding[1] /kinetics/IFNRJ2* REAC A B 
addmsg /kinetics/STAT1c_activation /kinetics/IFNRJ2* REAC B A 
addmsg /kinetics/STAT1c*_binding /kinetics/IFNRJ2* REAC A B 
addmsg /kinetics/SHP-2_binding[3] /kinetics/IFNRJ2* REAC A B 
addmsg /kinetics/SOCS1_binding[1] /kinetics/IFNRJ2* REAC A B 
addmsg /kinetics/unbind_SOCS1[1] /kinetics/IFNRJ2* REAC B A 
addmsg /kinetics/STAT1c_binding[1] /kinetics/STAT1c REAC A B 
addmsg /kinetics/STAT1c*_dephosphorylation /kinetics/STAT1c REAC B A 
addmsg /kinetics/STAT1n_cytoplasmic_transport /kinetics/STAT1c REAC B A 
addmsg /kinetics/STAT1c_binding[2] /kinetics/STAT1c REAC A B 
addmsg /kinetics/IFNRJ2*_dephospo /kinetics/STAT1c REAC B A 
addmsg /kinetics/dephospo_IFNRJ2* /kinetics/STAT1c REAC B A 
addmsg /kinetics/STAT1c_binding[3] /kinetics/STAT1c REAC A B 
addmsg /kinetics/STAT1c*_dephosphorylation[1] /kinetics/STAT1c REAC B A 
addmsg /kinetics/STAT1c_binding[1] /kinetics/IFNRJ2*-STAT1c REAC B A 
addmsg /kinetics/STAT1c_activation /kinetics/IFNRJ2*-STAT1c REAC A B 
addmsg /kinetics/IFNRJ2*-STAT1c_bind_SHP2 /kinetics/IFNRJ2*-STAT1c REAC A B 
addmsg /kinetics/SOCS1c_binding[2] /kinetics/IFNRJ2*-STAT1c REAC A B 
addmsg /kinetics/SOCS1_unbind /kinetics/IFNRJ2*-STAT1c REAC B A 
addmsg /kinetics/IFNRJ2*-STAT1c /kinetics/STAT1c_activation SUBSTRATE n 
addmsg /kinetics/IFNRJ2* /kinetics/STAT1c_activation PRODUCT n 
addmsg /kinetics/STAT1c* /kinetics/STAT1c_activation PRODUCT n 
addmsg /kinetics/STAT1c_activation /kinetics/STAT1c* REAC B A 
addmsg /kinetics/STAT1c*_binding /kinetics/STAT1c* REAC A B 
addmsg /kinetics/STAT1c*_dimerisation /kinetics/STAT1c* REAC A B 
addmsg /kinetics/STAT1c*_dimerisation /kinetics/STAT1c* REAC A B 
addmsg /kinetics/PPX_binding[1] /kinetics/STAT1c* REAC A B 
addmsg /kinetics/STAT1c*_dephosphorylation[1] /kinetics/STAT1c* REAC B A 
addmsg /kinetics/STAT1c* /kinetics/STAT1c*_binding SUBSTRATE n 
addmsg /kinetics/IFNRJ2* /kinetics/STAT1c*_binding SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-STAT1c* /kinetics/STAT1c*_binding PRODUCT n 
addmsg /kinetics/STAT1c*_binding /kinetics/IFNRJ2*-STAT1c* REAC B A 
addmsg /kinetics/STAT1c* /kinetics/STAT1c*_dimerisation SUBSTRATE n 
addmsg /kinetics/STAT1c*-STAT1c* /kinetics/STAT1c*_dimerisation PRODUCT n 
addmsg /kinetics/STAT1c* /kinetics/STAT1c*_dimerisation SUBSTRATE n 
addmsg /kinetics/STAT1c*_dimerisation /kinetics/STAT1c*-STAT1c* REAC B A 
addmsg /kinetics/PPX_binding[2] /kinetics/STAT1c*-STAT1c* REAC A B 
addmsg /kinetics/STAT1c_nuclear_transport /kinetics/STAT1c*-STAT1c* REAC A B 
addmsg /kinetics/SHP-2_binding[3] /kinetics/SHP-2 REAC A B 
addmsg /kinetics/IFNRJ2*_dephosphorylation /kinetics/SHP-2 REAC B A 
addmsg /kinetics/SHP-2_binding[1] /kinetics/SHP-2 REAC A B 
addmsg /kinetics/IFNRJ2*_dephospo /kinetics/SHP-2 REAC B A 
addmsg /kinetics/IFNRJ2*-STAT1c_bind_SHP2 /kinetics/SHP-2 REAC A B 
addmsg /kinetics/dephospo_IFNRJ2* /kinetics/SHP-2 REAC B A 
addmsg /kinetics/SHP2_binding[2] /kinetics/SHP-2 REAC A B 
addmsg /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 /kinetics/SHP-2 REAC B A 
addmsg /kinetics/SHP-2_binding[3] /kinetics/IFNRJ2*-SHP-2 REAC B A 
addmsg /kinetics/IFNRJ2*_dephosphorylation /kinetics/IFNRJ2*-SHP-2 REAC A B 
addmsg /kinetics/SOCS1_binding[3] /kinetics/IFNRJ2*-SHP-2 REAC A B 
addmsg /kinetics/SOCS1_unbind[1] /kinetics/IFNRJ2*-SHP-2 REAC B A 
addmsg /kinetics/IFNRJ2*-SHP-2 /kinetics/IFNRJ2*_dephosphorylation SUBSTRATE n 
addmsg /kinetics/SHP-2 /kinetics/IFNRJ2*_dephosphorylation PRODUCT n 
addmsg /kinetics/IFNRJ2 /kinetics/IFNRJ2*_dephosphorylation PRODUCT n 
addmsg /kinetics/PPX_binding[1] /kinetics/PPX REAC A B 
addmsg /kinetics/STAT1c*_dephosphorylation /kinetics/PPX REAC B A 
addmsg /kinetics/PPX_binding[2] /kinetics/PPX REAC A B 
addmsg /kinetics/STAT1c*_dephosphorylation[1] /kinetics/PPX REAC B A 
addmsg /kinetics/PPX_binding[1] /kinetics/PPX-STAT1c* REAC B A 
addmsg /kinetics/STAT1c*_dephosphorylation /kinetics/PPX-STAT1c* REAC A B 
addmsg /kinetics/PPX-STAT1c* /kinetics/STAT1c*_dephosphorylation SUBSTRATE n 
addmsg /kinetics/STAT1c /kinetics/STAT1c*_dephosphorylation PRODUCT n 
addmsg /kinetics/PPX /kinetics/STAT1c*_dephosphorylation PRODUCT n 
addmsg /kinetics/PPX_binding[2] /kinetics/PPX-STAT1c*-STAT1c* REAC B A 
addmsg /kinetics/STAT1c*_dephosphorylation[1] /kinetics/PPX-STAT1c*-STAT1c* REAC A B 
addmsg /kinetics/PPX-STAT1c*-STAT1c* /kinetics/STAT1c*_dephosphorylation[1] SUBSTRATE n 
addmsg /kinetics/PPX /kinetics/STAT1c*_dephosphorylation[1] PRODUCT n 
addmsg /kinetics/STAT1c /kinetics/STAT1c*_dephosphorylation[1] PRODUCT n 
addmsg /kinetics/STAT1c* /kinetics/STAT1c*_dephosphorylation[1] PRODUCT n 
addmsg /kinetics/STAT1c*-STAT1c* /kinetics/STAT1c_nuclear_transport SUBSTRATE n 
addmsg /kinetics/STAT1n*-STAT1n* /kinetics/STAT1c_nuclear_transport PRODUCT n 
addmsg /kinetics/STAT1c_nuclear_transport /kinetics/STAT1n*-STAT1n* REAC B A 
addmsg /kinetics/STAT1n*_dimerisation /kinetics/STAT1n*-STAT1n* REAC B A 
addmsg /kinetics/PPN_binding[1] /kinetics/STAT1n*-STAT1n* REAC A B 
addmsg /kinetics/STAT1n*_dimerisation /kinetics/STAT1n* REAC A B 
addmsg /kinetics/STAT1n*_dimerisation /kinetics/STAT1n* REAC A B 
addmsg /kinetics/PPN_binding /kinetics/STAT1n* REAC A B 
addmsg /kinetics/STAT1n*_dephosphorylation[1] /kinetics/STAT1n* REAC B A 
addmsg /kinetics/STAT1n* /kinetics/STAT1n*_dimerisation SUBSTRATE n 
addmsg /kinetics/STAT1n*-STAT1n* /kinetics/STAT1n*_dimerisation PRODUCT n 
addmsg /kinetics/STAT1n* /kinetics/STAT1n*_dimerisation SUBSTRATE n 
addmsg /kinetics/PPN_binding /kinetics/PPN REAC A B 
addmsg /kinetics/STAT1n*_dephosphorylation /kinetics/PPN REAC B A 
addmsg /kinetics/PPN_binding[1] /kinetics/PPN REAC A B 
addmsg /kinetics/STAT1n*_dephosphorylation[1] /kinetics/PPN REAC B A 
addmsg /kinetics/STAT1n* /kinetics/PPN_binding SUBSTRATE n 
addmsg /kinetics/PPN /kinetics/PPN_binding SUBSTRATE n 
addmsg /kinetics/PPN-STAT1n* /kinetics/PPN_binding PRODUCT n 
addmsg /kinetics/PPN_binding /kinetics/PPN-STAT1n* REAC B A 
addmsg /kinetics/STAT1n*_dephosphorylation /kinetics/PPN-STAT1n* REAC A B 
addmsg /kinetics/PPN-STAT1n* /kinetics/STAT1n*_dephosphorylation SUBSTRATE n 
addmsg /kinetics/PPN /kinetics/STAT1n*_dephosphorylation PRODUCT n 
addmsg /kinetics/STAT1n /kinetics/STAT1n*_dephosphorylation PRODUCT n 
addmsg /kinetics/STAT1n*_dephosphorylation /kinetics/STAT1n REAC B A 
addmsg /kinetics/STAT1n_cytoplasmic_transport /kinetics/STAT1n REAC A B 
addmsg /kinetics/STAT1n*_dephosphorylation[1] /kinetics/STAT1n REAC B A 
addmsg /kinetics/PPN /kinetics/PPN_binding[1] SUBSTRATE n 
addmsg /kinetics/STAT1n*-STAT1n* /kinetics/PPN_binding[1] SUBSTRATE n 
addmsg /kinetics/PPN-STAT1n*-STAT1n* /kinetics/PPN_binding[1] PRODUCT n 
addmsg /kinetics/PPN_binding[1] /kinetics/PPN-STAT1n*-STAT1n* REAC B A 
addmsg /kinetics/STAT1n*_dephosphorylation[1] /kinetics/PPN-STAT1n*-STAT1n* REAC A B 
addmsg /kinetics/PPN-STAT1n*-STAT1n* /kinetics/STAT1n*_dephosphorylation[1] SUBSTRATE n 
addmsg /kinetics/PPN /kinetics/STAT1n*_dephosphorylation[1] PRODUCT n 
addmsg /kinetics/STAT1n /kinetics/STAT1n*_dephosphorylation[1] PRODUCT n 
addmsg /kinetics/STAT1n* /kinetics/STAT1n*_dephosphorylation[1] PRODUCT n 
addmsg /kinetics/STAT1c /kinetics/STAT1n_cytoplasmic_transport PRODUCT n 
addmsg /kinetics/STAT1n /kinetics/STAT1n_cytoplasmic_transport SUBSTRATE n 
addmsg /kinetics/mRNASn /kinetics/mRNAn_cytoplasmic_transport SUBSTRATE n 
addmsg /kinetics/mRNASc /kinetics/mRNAn_cytoplasmic_transport PRODUCT n 
addmsg /kinetics/Transcription_complex /kinetics/Transcription_complex/DNA ENZYME n 
addmsg /kinetics/SOCS1_binding[1] /kinetics/SOCS1 REAC A B 
addmsg /kinetics/IFNRJ2*_dephospo /kinetics/SOCS1 REAC B A 
addmsg /kinetics/degradation /kinetics/SOCS1 REAC A B 
addmsg /kinetics/SOCS1_synthesis /kinetics/SOCS1 REAC B A 
addmsg /kinetics/SOCS1c_binding[2] /kinetics/SOCS1 REAC A B 
addmsg /kinetics/SOCS1_binding[3] /kinetics/SOCS1 REAC A B 
addmsg /kinetics/SOCS1c_binding[4] /kinetics/SOCS1 REAC A B 
addmsg /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 /kinetics/SOCS1 REAC B A 
addmsg /kinetics/SOCS1_binding[1] /kinetics/SOCS1-IFNRJ2* REAC B A 
addmsg /kinetics/STAT1c_binding[2] /kinetics/SOCS1-IFNRJ2* REAC A B 
addmsg /kinetics/unbind_SOCS1[1] /kinetics/SOCS1-IFNRJ2* REAC A B 
addmsg /kinetics/SHP2_binding[2] /kinetics/SOCS1-IFNRJ2* REAC A B 
addmsg /kinetics/STAT1c_binding[2] /kinetics/SOCS1-IFNRJ2*-STAT1c REAC B A 
addmsg /kinetics/SHP-2_binding[1] /kinetics/SOCS1-IFNRJ2*-STAT1c REAC A B 
addmsg /kinetics/SOCS1c_binding[2] /kinetics/SOCS1-IFNRJ2*-STAT1c REAC B A 
addmsg /kinetics/SOCS1_unbind /kinetics/SOCS1-IFNRJ2*-STAT1c REAC A B 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c /kinetics/SHP-2_binding[1] SUBSTRATE n 
addmsg /kinetics/SHP-2 /kinetics/SHP-2_binding[1] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 /kinetics/SHP-2_binding[1] PRODUCT n 
addmsg /kinetics/SHP-2_binding[1] /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 REAC B A 
addmsg /kinetics/IFNRJ2*_dephospo /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 REAC A B 
addmsg /kinetics/unbind_SOCS1[2] /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 REAC A B 
addmsg /kinetics/SOCS1c_binding[4] /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 REAC B A 
addmsg /kinetics/STAT1c_binding[3] /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 REAC B A 
addmsg /kinetics/SOCS1 /kinetics/degradation SUBSTRATE n 
addmsg /kinetics/SOCS1_Deg /kinetics/degradation PRODUCT n 
addmsg /kinetics/mRNASc /kinetics/mRNA_deg SUBSTRATE n 
addmsg /kinetics/mRNA_remain /kinetics/mRNA_deg PRODUCT n 
addmsg /kinetics/degradation /kinetics/SOCS1_Deg REAC B A 
addmsg /kinetics/mRNA_remain /kinetics/mRNA_remain SUMTOTAL n nInit 
addmsg /kinetics/mRNA_deg /kinetics/mRNA_remain REAC B A 
addmsg /kinetics/STAT1n*-STAT1n* /kinetics/dup_STAT1n*-STAT1n* SUMTOTAL n nInit 
addmsg /kinetics/Transcription_comp2/DNA /kinetics/dup_STAT1n*-STAT1n* REAC sA B 
addmsg /kinetics/dup_mRNASc /kinetics/SOCS1_synthesis SUBSTRATE n 
addmsg /kinetics/SOCS1 /kinetics/SOCS1_synthesis PRODUCT n 
addmsg /kinetics/IFN /kinetics/IFN-R_bind SUBSTRATE n 
addmsg /kinetics/R /kinetics/IFN-R_bind SUBSTRATE n 
addmsg /kinetics/IFNR /kinetics/IFN-R_bind PRODUCT n 
addmsg /kinetics/IFN-R_bind /kinetics/IFNR REAC B A 
addmsg /kinetics/IFNR-JAK_bind /kinetics/IFNR REAC A B 
addmsg /kinetics/IFNR /kinetics/IFNR-JAK_bind SUBSTRATE n 
addmsg /kinetics/JAK /kinetics/IFNR-JAK_bind SUBSTRATE n 
addmsg /kinetics/IFNRJ_ /kinetics/IFNR-JAK_bind PRODUCT n 
addmsg /kinetics/IFNR-JAK_bind /kinetics/IFNRJ_ REAC B A 
addmsg /kinetics/IFNRJ_dimerisation /kinetics/IFNRJ_ REAC A B 
addmsg /kinetics/SHP-2 /kinetics/IFNRJ2*-STAT1c_bind_SHP2 SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-STAT1c /kinetics/IFNRJ2*-STAT1c_bind_SHP2 SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-STAT1c-SHP2 /kinetics/IFNRJ2*-STAT1c_bind_SHP2 PRODUCT n 
addmsg /kinetics/IFNRJ2*-STAT1c_bind_SHP2 /kinetics/IFNRJ2*-STAT1c-SHP2 REAC B A 
addmsg /kinetics/dephospo_IFNRJ2* /kinetics/IFNRJ2*-STAT1c-SHP2 REAC A B 
addmsg /kinetics/unbind_SOCS1[2] /kinetics/IFNRJ2*-STAT1c-SHP2 REAC B A 
addmsg /kinetics/SOCS1c_binding[4] /kinetics/IFNRJ2*-STAT1c-SHP2 REAC A B 
addmsg /kinetics/IFNRJ2*-STAT1c-SHP2 /kinetics/dephospo_IFNRJ2* SUBSTRATE n 
addmsg /kinetics/IFNRJ2 /kinetics/dephospo_IFNRJ2* PRODUCT n 
addmsg /kinetics/STAT1c /kinetics/dephospo_IFNRJ2* PRODUCT n 
addmsg /kinetics/SHP-2 /kinetics/dephospo_IFNRJ2* PRODUCT n 
addmsg /kinetics/Transcription_comp2 /kinetics/Transcription_comp2/DNA ENZYME n 
addmsg /kinetics/dup_STAT1n*-STAT1n* /kinetics/Transcription_comp2/DNA SUBSTRATE n 
addmsg /kinetics/Transcription_comp2/DNA /kinetics/mRNAVn MM_PRD pA 
addmsg /kinetics/cyto_trans2 /kinetics/mRNAVn REAC A B 
addmsg /kinetics/mRNAVn /kinetics/cyto_trans2 SUBSTRATE n 
addmsg /kinetics/mRNAVc /kinetics/cyto_trans2 PRODUCT n 
addmsg /kinetics/cyto_trans2 /kinetics/mRNAVc REAC B A 
addmsg /kinetics/mRNAVc_deg /kinetics/mRNAVc REAC A B 
addmsg /kinetics/mRNAVc /kinetics/mRNAVc_dupli SUMTOTAL n nInit 
addmsg /kinetics/AV_formation /kinetics/mRNAVc_dupli REAC A B 
addmsg /kinetics/mRNAVc_dupli /kinetics/AV_formation SUBSTRATE n 
addmsg /kinetics/AV /kinetics/AV_formation PRODUCT n 
addmsg /kinetics/AV_formation /kinetics/AV REAC B A 
addmsg /kinetics/AV_degdra /kinetics/AV REAC A B 
addmsg /kinetics/AV /kinetics/AV_degdra SUBSTRATE n 
addmsg /kinetics/AV_degraded /kinetics/AV_degdra PRODUCT n 
addmsg /kinetics/AV_degdra /kinetics/AV_degraded REAC B A 
addmsg /kinetics/mRNAVc /kinetics/mRNAVc_deg SUBSTRATE n 
addmsg /kinetics/mRNAVc_remain /kinetics/mRNAVc_deg PRODUCT n 
addmsg /kinetics/mRNAVc_deg /kinetics/mRNAVc_remain REAC B A 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c /kinetics/SOCS1_unbind SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-STAT1c /kinetics/SOCS1_unbind PRODUCT n 
addmsg /kinetics/SOCS1_binding[3] /kinetics/SOCS1-IFNR2*-SHP2 REAC B A 
addmsg /kinetics/SHP2_binding[2] /kinetics/SOCS1-IFNR2*-SHP2 REAC B A 
addmsg /kinetics/SOCS1_unbind[1] /kinetics/SOCS1-IFNR2*-SHP2 REAC A B 
addmsg /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 /kinetics/SOCS1-IFNR2*-SHP2 REAC A B 
addmsg /kinetics/STAT1c_binding[3] /kinetics/SOCS1-IFNR2*-SHP2 REAC A B 
addmsg /kinetics/SOCS1-IFNR2*-SHP2 /kinetics/SOCS1_unbind[1] SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-SHP-2 /kinetics/SOCS1_unbind[1] PRODUCT n 
addmsg /kinetics/SOCS1-IFNR2*-SHP2 /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 SUBSTRATE n 
addmsg /kinetics/SOCS1 /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 PRODUCT n 
addmsg /kinetics/IFNRJ2 /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 PRODUCT n 
addmsg /kinetics/SHP-2 /kinetics/Disso_SOCS1-IFNRJ2*-SHP2 PRODUCT n 
addmsg /kinetics/STAT1c /kinetics/STAT1c_binding[2] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2* /kinetics/STAT1c_binding[2] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c /kinetics/STAT1c_binding[2] PRODUCT n 
addmsg /kinetics/IFNRJ2* /kinetics/STAT1c_binding[1] SUBSTRATE n 
addmsg /kinetics/STAT1c /kinetics/STAT1c_binding[1] SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-STAT1c /kinetics/STAT1c_binding[1] PRODUCT n 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 /kinetics/unbind_SOCS1[2] SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-STAT1c-SHP2 /kinetics/unbind_SOCS1[2] PRODUCT n 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 /kinetics/IFNRJ2*_dephospo SUBSTRATE n 
addmsg /kinetics/SOCS1 /kinetics/IFNRJ2*_dephospo PRODUCT n 
addmsg /kinetics/IFNRJ2 /kinetics/IFNRJ2*_dephospo PRODUCT n 
addmsg /kinetics/SHP-2 /kinetics/IFNRJ2*_dephospo PRODUCT n 
addmsg /kinetics/STAT1c /kinetics/IFNRJ2*_dephospo PRODUCT n 
addmsg /kinetics/PPX /kinetics/PPX_binding[2] SUBSTRATE n 
addmsg /kinetics/STAT1c*-STAT1c* /kinetics/PPX_binding[2] SUBSTRATE n 
addmsg /kinetics/PPX-STAT1c*-STAT1c* /kinetics/PPX_binding[2] PRODUCT n 
addmsg /kinetics/STAT1c* /kinetics/PPX_binding[1] SUBSTRATE n 
addmsg /kinetics/PPX /kinetics/PPX_binding[1] SUBSTRATE n 
addmsg /kinetics/PPX-STAT1c* /kinetics/PPX_binding[1] PRODUCT n 
addmsg /kinetics/mRNAn_cytoplasmic_transport /kinetics/mRNASn REAC A B 
addmsg /kinetics/mRNAn_cytoplasmic_transport /kinetics/mRNASc REAC B A 
addmsg /kinetics/mRNA_deg /kinetics/mRNASc REAC A B 
addmsg /kinetics/SOCS1_synthesis /kinetics/dup_mRNASc REAC A B 
addmsg /kinetics/mRNASc /kinetics/dup_mRNASc SUMTOTAL n nInit 
addmsg /kinetics/SOCS1-IFNRJ2* /kinetics/unbind_SOCS1[1] SUBSTRATE n 
addmsg /kinetics/IFNRJ2* /kinetics/unbind_SOCS1[1] PRODUCT n 
addmsg /kinetics/SOCS1 /kinetics/SOCS1c_binding[2] SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-STAT1c /kinetics/SOCS1c_binding[2] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c /kinetics/SOCS1c_binding[2] PRODUCT n 
addmsg /kinetics/IFNRJ2* /kinetics/SOCS1_binding[1] SUBSTRATE n 
addmsg /kinetics/SOCS1 /kinetics/SOCS1_binding[1] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2* /kinetics/SOCS1_binding[1] PRODUCT n 
addmsg /kinetics/SOCS1 /kinetics/SOCS1_binding[3] SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-SHP-2 /kinetics/SOCS1_binding[3] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNR2*-SHP2 /kinetics/SOCS1_binding[3] PRODUCT n 
addmsg /kinetics/SHP-2 /kinetics/SHP2_binding[2] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2* /kinetics/SHP2_binding[2] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNR2*-SHP2 /kinetics/SHP2_binding[2] PRODUCT n 
addmsg /kinetics/SOCS1 /kinetics/SOCS1c_binding[4] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 /kinetics/SOCS1c_binding[4] PRODUCT n 
addmsg /kinetics/IFNRJ2*-STAT1c-SHP2 /kinetics/SOCS1c_binding[4] SUBSTRATE n 
addmsg /kinetics/STAT1c /kinetics/STAT1c_binding[3] SUBSTRATE n 
addmsg /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2 /kinetics/STAT1c_binding[3] PRODUCT n 
addmsg /kinetics/SOCS1-IFNR2*-SHP2 /kinetics/STAT1c_binding[3] SUBSTRATE n 
addmsg /kinetics/IFNRJ2* /kinetics/SHP-2_binding[3] SUBSTRATE n 
addmsg /kinetics/SHP-2 /kinetics/SHP-2_binding[3] SUBSTRATE n 
addmsg /kinetics/IFNRJ2*-SHP-2 /kinetics/SHP-2_binding[3] PRODUCT n 
addmsg /kinetics/SOCS1 /graphs/conc1/SOCS1.Co PLOT Co *SOCS1.Co *12 
addmsg /kinetics/IFNRJ2* /graphs/conc2/IFNRJ2*.Co PLOT Co *IFNRJ2*.Co *62 
addmsg /kinetics/mRNASc /graphs/conc2/mRNASc.Co PLOT Co *mRNASc.Co *36 
addmsg /kinetics/STAT1c*-STAT1c* /moregraphs/conc3/STAT1c*-STAT1c*.Co PLOT Co *STAT1c*-STAT1c*.Co *52 
addmsg /kinetics/STAT1n /moregraphs/conc3/STAT1n.Co PLOT Co *STAT1n.Co *10 
addmsg /kinetics/STAT1c /moregraphs/conc4/STAT1c.Co PLOT Co *STAT1c.Co *24 
addmsg /kinetics/STAT1n*-STAT1n* /moregraphs/conc4/STAT1n*-STAT1n*.Co PLOT Co *STAT1n*-STAT1n*.Co *62 
enddump
// End of dump

call /kinetics/R/notes LOAD \
"JAK binds to the intracellular domain of the" \
"IFN gamma receptor" \
"" \
"R = 10 nM = 0.01 uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/JAK_binding/notes LOAD \
"Binding of JAK to the intracellular domain of the" \
"IFN gamma receptor" \
"" \
"Kf = 100*10e+06 /M/sec = 100/uM/sec" \
"Kb = 0.05 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/JAK/notes LOAD \
"JAK: Janus Kinase" \
"" \
"JAK = 20 nM = 0.02 uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/RJ/notes LOAD \
"JAK bound to the intracellular domain of the" \
"IFN gamma receptor" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ/notes LOAD \
"IFN gamma liganding to the IFN gamma receptor that has" \
"JAK bound to its intracellular domain" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFN/notes LOAD \
"IFN gamma liganding to the IFN gamma receptor that has" \
"JAK bound to its intracellular domain" \
"" \
"IFN = 10nM = 0.01uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFN_binding/notes LOAD \
"Binding of JAK to the intracellular domain of the" \
"IFN gamma receptor" \
"" \
"Kf = 20*10e+06 /M/sec = 20/uM/sec" \
"Kb = 0.02 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ2/notes LOAD \
"Dimer of IFN gamma liganding to the IFN gamma receptor " \
"that has JAK bound to its intracellular domain" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ_dimerisation/notes LOAD \
"Dimerisation of the RJ complex" \
"" \
"Kf = 40*10e+06 /M/sec = 40/uM/sec" \
"Kb = 0.2 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ_activation/notes LOAD \
"Dimerisation of the RJ complex leads to the phosphorylation " \
"of several tyrosine residues by JAK" \
"" \
"Kf = 0.005*10e+06 /M/sec = 0.005/uM/sec" \
"Kb = 0 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ2*/notes LOAD \
"Phosphorylated dimer of IFN gamma liganding to the " \
"IFN gamma receptor that has JAK bound to its " \
"intracellular domain" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c/notes LOAD \
"STAT: Signal Transducer and Activator of Transcription" \
"STAT1c binds to IFNRJ2* and is phosphorylated by JAK." \
"The phosphorylated STAT1 forms a homodimer which is" \
"translocated to the nucleus and works as " \
"transcription factors." \
"" \
"STAT1c = 1000nM = 1uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ2*-STAT1c/notes LOAD \
"STAT1c complexed with phosphorylated IFNRJ dimer" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c_activation/notes LOAD \
"Dimerisation of the RJ complex leads to the phosphorylation " \
"of several tyrosine residues by JAK" \
"" \
"Kf = 0.4 /sec" \
"Kb = 0 /M/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c*/notes LOAD \
"STAT: Signal Transducer and Activator of Transcription" \
"Cytoplasmic fraction of phosphorylated STAT1" \
"" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c*_binding/notes LOAD \
"Binding of phosphorylated STAT1c to " \
"JAK-IFNR phosphorylated dimer" \
"" \
"Kf = 5*10e+06 /M/sec = 5/uM/sec" \
"Kb = 0.5 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ2*-STAT1c*/notes LOAD \
"Phosphorylated STAT1c complexed with " \
"phosphorylated IFNRJ dimer" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c*_dimerisation/notes LOAD \
"Dimerisation of phosphorylated STAT1c" \
"" \
"Kf = 20*10e+06 /M/sec = 20/uM/sec" \
"Kb = 0.1 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c*-STAT1c*/notes LOAD \
"Cytoplasmic fraction of phosphorylated STAT1 dimers" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SHP-2/notes LOAD \
"SHP-2: SH2 domain-containing tyrosine phosphatase 2" \
"" \
"SHP-2 = 100nM = 0.1uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ2*-SHP-2/notes LOAD \
"Phosphorylated IFNRJ dimer bound to SH2 domain containing" \
"tyrosine phosphatase 2" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFNRJ2*_dephosphorylation/notes LOAD \
"SHP-2 dephosphorylates JAK-IFNR dimer" \
"" \
"Kf = 0.003 /sec" \
"Kb = 0 /uM/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPX/notes LOAD \
"PPX: Unidentified phosphatase in the cytoplasm" \
"" \
"PPX = 50nM = 0.05uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPX-STAT1c*/notes LOAD \
"Phosphorylated STAT1c bound to cytoplasmic phosphatase" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c*_dephosphorylation/notes LOAD \
"Cytoplasmic phosphatase (PPX) dephosphorylates STAT1c" \
"" \
"Kf = 0.003/sec" \
"Kb = 0/sec/uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPX-STAT1c*-STAT1c*/notes LOAD \
"Phosphorylated STAT1c dimer bound to cytoplasmic phosphatase" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c*_dephosphorylation[1]/notes LOAD \
"Cytoplasmic phosphatase (PPX) dephosphorylates STAT1c dimer" \
"" \
"Kf = 0.003" \
"Kb = 0" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c_nuclear_transport/notes LOAD \
"Transport of cytoplasmic, phosphorylated STAT1 dimers to" \
"the nucleus" \
"" \
"Kf = 0.005 /sec" \
"Kb = 0 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1n*-STAT1n*/notes LOAD \
"Nucleoplasmic fraction of phosphorylated STAT1 dimers" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1n*/notes LOAD \
"STAT: Signal Transducer and Activator of Transcription" \
"Nucleoplasmic fraction of phosphorylated STAT1" \
"" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1n*_dimerisation/notes LOAD \
"Dimerisation of phosphorylated STAT1n" \
"" \
"Kf = 20/sec/uM" \
"Kb = 0.1/sec" \
"" \
"Note: These values have been out according to the DATA sheet " \
"provided by author." \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPN/notes LOAD \
"PPX: Unidentified phosphatase in the nucleus" \
"" \
"PPX = 60nM = 0.06uM" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPN_binding/notes LOAD \
"Binding of PPN to phosphorylated STAT1n" \
"" \
"Kf = 1*10e+06 /M/sec = 1/uM/sec" \
"Kb = 0.2 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPN-STAT1n*/notes LOAD \
"Phosphorylated STAT1n bound to nucleoplasmic phosphatase" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1n*_dephosphorylation/notes LOAD \
"Nucleoplasmic phosphatase (PPN) dephosphorylates STAT1n" \
"" \
"Kf = 0.005 /sec" \
"Kb = 0 /uM/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1n/notes LOAD \
"STAT: Signal Transducer and Activator of Transcription" \
"Nucleoplasmic fraction of STAT1" \
"" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPN_binding[1]/notes LOAD \
"Binding of PPN to phosphorylated STAT1n dimer" \
"" \
"Kf = 1*10e+06 /M/sec = 1/uM/sec" \
"Kb = 0.2 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPN-STAT1n*-STAT1n*/notes LOAD \
"Phosphorylated STAT1n dimer " \
"bound to nucleoplasmic phosphatase" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1n*_dephosphorylation[1]/notes LOAD \
"Nucleoplasmic phosphatase (PPN) dephosphorylates STAT1n" \
"" \
"Kf = 0.005 /sec" \
"Kb = 0 /uM/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1n_cytoplasmic_transport/notes LOAD \
"Transport of nucleoplasmic STAT1 to the cytoplasm" \
"" \
"Kf = 0.05 /sec/uM" \
"Kb = 0 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/mRNAn_cytoplasmic_transport/notes LOAD \
"Transport of nucleoplasmic mRNA to the cytoplasm" \
"" \
"Kf = 0.001 /sec" \
"Kb = 0 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/Transcription_complex/notes LOAD \
"DNA to which STAT1 is bound " \
"along with other transcription factors" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/Transcription_complex/DNA/notes LOAD \
"Km = 400nM = 0.4uM" \
"Vmax = 0.01 nM/sec. Assume [enz] = 1 nM, then kcat = 0.01/sec." \
" " \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SOCS1/notes LOAD \
"SOCS1: Suppressor of cytokine signaling-1" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SOCS1-IFNRJ2*/notes LOAD \
"SOCS1 complexed with phosphorylated IFNRJ dimer" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SOCS1-IFNRJ2*-STAT1c/notes LOAD \
"STAT1 bound to SOCS1 complexed with " \
"phosphorylated IFNRJ dimer" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SHP-2_binding[1]/notes LOAD \
"Binding of SHP-2 to JAK-IFNR phosphorylated dimer complexed" \
"with SOCS1 and STAT1c" \
"" \
"Kf = 1*10e+06 /M/sec = 1/uM/sec" \
"Kb = 0.2 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SOCS1-IFNRJ2*-STAT1c-SHP-2/notes LOAD \
"SHP-2 bound to phosphorylated IFNRJ dimer " \
"complexed with SOCS1 and STAT1" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/degradation/notes LOAD \
"Degdration of SOCS1" \
"" \
"kf = 0.0005 uM " \
"kb = 0" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/mRNA_deg/notes LOAD \
"Degradation of mRNAc in the cytoplasm." \
"" \
"kf = 0.0005uM" \
"kb = 0" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SOCS1_Deg/notes LOAD \
"Degraded SOCS1" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/mRNA_remain/notes LOAD \
"mRNAc degraded in cytoplasm" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/dup_STAT1n*-STAT1n*/notes LOAD \
"Duplicate of the STAT1c dimer" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SOCS1_synthesis/notes LOAD \
"SOCS1 synthesis from duplicate mRNAc" \
"" \
"kf = 0.01/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/IFN-R_bind/notes LOAD \
"Binding reaction of IFN + R" \
"" \
"kf = 20/sec/uM" \
"kb = 0.02/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/IFNR/notes LOAD \
"Formation of IFNR" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/IFNR-JAK_bind/notes LOAD \
"Binding reaction of IFNR + JAK" \
"" \
"kf = 100/sec/uM" \
"kb = 0.05/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/IFNRJ_/notes LOAD \
"Formation of IFNJR2_" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196." \
""
call /kinetics/IFNRJ2*-STAT1c_bind_SHP2/notes LOAD \
"Binding of IFNRJ2*-STAT1c to SHP2" \
"" \
"kf = 1/sec/uM" \
"kb = 0.2/sec" \
"" \
"Appendix, Satoshi Yamada 2003" \
"FEBS Letters 534:190-196."
call /kinetics/IFNRJ2*-STAT1c-SHP2/notes LOAD \
"Formation of IFNRJ2*-STAT1c-SHP2" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/dephospo_IFNRJ2*/notes LOAD \
"Dephosphoryaltion of IFNRJ2*" \
"" \
"kf = 0.003/sec" \
"kb = 0/sec/uM^2" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/Transcription_comp2/notes LOAD \
"Transcription complex for mRNAVn" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196." \
""
call /kinetics/Transcription_comp2/DNA/notes LOAD \
"DNA " \
"Km = 0.4uM" \
"kcat = 0.01/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;190-196."
call /kinetics/mRNAVn/notes LOAD \
"Transcription of mRNAVn" \
"" \
"Note: This reaction is now in the paper but in the data sheet " \
"provided by author." \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/cyto_trans2/notes LOAD \
"Cytoplasmic transport of mRNAVn" \
"" \
"kf = 0.001/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/mRNAVc/notes LOAD \
"mRNAVc in the cytoplasm" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/mRNAVc_dupli/notes LOAD \
"Duplicate of mRNAVc" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;19-0-196."
call /kinetics/AV_formation/notes LOAD \
"Formation reaction of AV" \
"" \
"kf = 0.002/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;190-196."
call /kinetics/AV_degdra/notes LOAD \
"Degradation reaction of AV" \
"" \
"kf = 0.00005/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/AV_degraded/notes LOAD \
"Remains of AV" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/mRNAVc_deg/notes LOAD \
"Degdration reaction of mRNAVc" \
"" \
"kf = 0.002/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;190-196"
call /kinetics/mRNAVc_remain/notes LOAD \
"Remains of mRNAVc" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;190-196."
call /kinetics/SOCS1_unbind/notes LOAD \
"Ubinding reaction of SOCS1" \
"" \
"kf = 0.0005/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters, 534:190-196.  "
call /kinetics/SOCS1-IFNR2*-SHP2/notes LOAD \
"SOCS1-IFNRJ2*-SHP2" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/SOCS1_unbind[1]/notes LOAD \
"Unbinding reaction of SOCS1" \
"" \
"kf = 0.0005/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/Disso_SOCS1-IFNRJ2*-SHP2/notes LOAD \
"Dissociation reaction of SOCS1-IFNRJ2*-SHP2" \
"" \
"kf = 0.003/sec" \
"kb = 0/sec/uM^2" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/STAT1c_binding[2]/notes LOAD \
"Binding of STAT1c to JAK-IFNR phosphorylated dimer" \
"complexed with SOCS1" \
"" \
"Kf = 8*10e+06 /M/sec = 8/uM/sec" \
"Kb = 0.8 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/STAT1c_binding[1]/notes LOAD \
"Binding of STAT1c to JAK-IFNR phosphorylated dimer" \
"" \
"Kf = 8*10e+06 /M/sec = 8/uM/sec" \
"Kb = 0.8 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/unbind_SOCS1[2]/notes LOAD \
"IFNRJ2*-STAT1c-SHP2 formation reaction." \
"" \
"kf = 0.0005/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/IFNRJ2*_dephospo/notes LOAD \
"SHP-2 dephosphorylates JAK-IFNR dimer " \
"complexed with SOCS1 and STAT1c" \
"" \
"Kf = 0.003 /sec" \
"Kb = 0 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPX_binding[2]/notes LOAD \
"Binding of PPX to phosphorylated STAT1c dimer" \
"" \
"Kf = 1*10e+06 /M/sec = 1/uM/sec" \
"Kb = 0.2 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/PPX_binding[1]/notes LOAD \
"Binding of PPX to phosphorylated STAT1c" \
"" \
"Kf = 1*10e+06 /M/sec = 1/sec/uM" \
"Kb = 0.2 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/mRNASn/notes LOAD \
"Nuclear fraction of mRNA transcribed from DNA " \
"by STAT1 activation factors." \
"" \
"Note: This reaction has been knocked out so there will be no " \
"mRNASn formation." \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/mRNASc/notes LOAD \
"Cytoplasmic fraction of mRNA transcribed from DNA " \
"by STAT1 activation factors" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/dup_mRNASc/notes LOAD \
"Duplicate of the mRNAc" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/unbind_SOCS1[1]/notes LOAD \
"Unbinding reaction of SOCS1" \
"" \
"kf = 0.0005/sec" \
"kb = 0/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/SOCS1c_binding[2]/notes LOAD \
"Binding reaction of SOCS1" \
"" \
"kf = 20/sec/uM" \
"kb = 0.1/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196."
call /kinetics/SOCS1_binding[1]/notes LOAD \
"Binding of SOCS1 to phosphorylated dimer of IFN gamma" \
"liganding to the IFN gamma receptor that has JAK bound " \
"to its intracellular domain" \
"" \
"Kf = 20*10e+06 /M/sec = 20/uM/sec" \
"Kb = 0.1 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/SOCS1_binding[3]/notes LOAD \
"Binding reaction of SOCS1" \
"" \
"kf = 20/sec/uM" \
"kb = 0.1/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-194."
call /kinetics/SHP2_binding[2]/notes LOAD \
"SHP2 binding reaction" \
"" \
"kf = 1/sec/uM" \
"kb = 0.2/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;190-196."
call /kinetics/SOCS1c_binding[4]/notes LOAD \
"SOCS1 binding reaction " \
"" \
"kf = 20/sec/uM" \
"kb = 0.1/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;190-196."
call /kinetics/STAT1c_binding[3]/notes LOAD \
"Binding reaction of STAT1c" \
"" \
"kf = 8/sec/uM" \
"kb = 0.8/sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534;190-196."
call /kinetics/SHP-2_binding[3]/notes LOAD \
"Binding of SHP-2 to JAK-IFNR phosphorylated dimer" \
"" \
"Kf = 1*10e+06 /M/sec = 1/uM/sec" \
"Kb = 0.2 /sec" \
"" \
"Appendix, Satoshi Yamada et al 2003" \
"FEBS Letters 534:190-196"
call /kinetics/doqcsinfo/notes LOAD \
"This model was taken from the <a href =http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=12527385&query_hl=3&itool=pubm?cmded_DocSum>Yamada S et al. FEBS Letters 2003 Jan 16;534(1-3):190-6</a>" \
"This model shows the control mechanism of Jak-Stat pathway, here SOCS1 (Suppressor of cytokine signaling-I) was identified as the negative regulator of Jak and STAT signal transduction pathway. " \
"This is the knockout version of Jak-Stat pathway in this model the SOCS1 has been knocked out i.e it formation is not shown." \
"The graphs are almost similar to the graphs as shown in the paper but STAT1n graph has some ambiguities. Thanks to Dr Satoshi Yamada for clarifying some of those ambiguities and providing the values used in the simulations."
complete_loading