Rxn file: rf.A7c3  --  Fig 7D

.A7-fr A5a use RNfb2r to program time delays in k!()
.A7a-cyD.cdk4 waves with time delays
.A7c-base on .A6b (to include direct rxn of cyD.cdk4
   with Rb (rxns 39-41)
.A7c2-preCyD(x17)=0,50,100,150,200 -> P.A7c2(x3,5,10,13)
.A7c3-preCyD(x17)=200; tDelayk(k1)=0,50,100,150,200

Format for scan2:
 sp% (not actually used in scan2)
 itemtype1%,scanitem1%,mode1%,x1!,x2!,xd!
 itemtype2%,scanitem2%,mode2%,y1!,y2!,yd!
 itemtype: 0 -> x!(scanitem)  
           1 -> k!(scanitem)
           2 -> tDelayk!(scanitem)
 mode: 0 -> x1!=x1!+xd!;  1 -> x1!-x1!*xd!;  etc   

dt   nsteps% 
  i   i1  i2  i3  o1  o2  o3  e   k
i   x0  endptConc  x$
*
.625, 320,60 
  1, 17,  0,  0,  1,  0,  0,  0, .05, +
  2,  1,  0,  0, 19,  0,  0,  0, 4, +
  3,  1,  2,  0,  3,  0,  0,  0, 1, +
  4,  3,  0,  0,  1,  2,  0,  0, 4, +
  5,  3, 10,  0,  6,  0,  0,  0, .05, +
  6,  6,  0,  0,  3, 10,  0,  0, 10, +
  7,  6,  0,  0,  3,  5,  7,  0, 1, + 1
  8,  4,  5,  0, 10,  0,  0,  0, 1, k 1
  9, 10,  0,  0,  4,  5,  0,  0, 0, k_
 10,-18,  0,  0,  4,  0,  0,  0, 0, s
 11,  4,  0,  0, 19,  0,  0,  0, 0, d
 12, 12,  0,  0, 19,  0,  0,  0, 0, d2
 13, 11, 12,  0, 13,  0,  0,  0, 1, k1 1
 14, 13,  0,  0, 11, 12,  0,  0, 1, k_1 1
 15, 10, 13,  0, 14,  0,  0,  0, .05, b  0.1
 16, 14,  0,  0, 10, 13,  0,  0, 10, + 10
 17, 14,  0,  0,  5,  7, 13,  0, 1, + 1
 18,-20,  0,  0,  5,  0,  0,  0, 1, s1 1
 19,  5, 22,  0, 23,  0,  0,  0, 2, d1  2
 20, 23,  0,  0, 22,  0,  0,  0, 2, d1/Df  2
 21,  5, 16,  0, 21,  0,  0,  0, 1, + 1
 22, 21,  0,  0,  5, 16,  0,  0, 1, + 1
 23,-21,  0,  0, 24,  0,  0,  0, 1, c 1
 24,-21,  0,  0,  5,  0,  0,  0, 0, +
 25,  5,  0,  0, 19,  0,  0,  0, .1, + 0.1
 26,-24,  0,  0, 12,  0,  0,  0, 1, +  1
 27, 13,  0,  0, 11, 25,  0,  0, 1, +  1
 28, 24,  0,  0, 19,  0,  0,  0, .1, + 0.1
 29,  4, 13,  0,  8,  0,  0,-15, 1, =k15
 30,  8,  0,  0,  4, 13,  0,-16, 1, =k16
 31,  8,  0,  0,  7, 13,  0,-17, 1, =k17
 32,  5, 26,  0, 27,  0,  0,  0, 0, + 1
 33, 27,  0,  0,  5, 26,  0,  0, 0, + 1
 34,-27,  0,  0, 28,  0,  0,  0, 0, +
 35, 28,  0,  0, 19,  0,  0,  0, 0, +
 36,-28,  0,  0,  5,  0,  0,  0, 0, +
 37,-20,  0,  0, 28,  0,  0,  0, 0, +
 38,  1, 29,  0, 19,  0,  0,  0, 0, +
 39,  3,  4,  0, 30,  0,  0, -5, 1, =k5
 40, 30,  0,  0,  3,  4,  0, -6, 1, =k6
 41, 30,  0,  0,  3,  7,  0, -7, 1, =k7 
   0,  0,  0,  0,  0,  0,  0,  0,  0, end
   1, 0   , 0, cyD
   2, 40   , 0, cdk4
  -3, 0   , 0, cyD.cdk4
   4, 200   , 0, Rb
  -5, 0   , 0, E2F
   6, 0   , 0, cyD.cdk4.Rb.E2F
   7, 0   , 0, RbP
   8, 0   , 0, cyE.cdk2.Rb
   9, 0   , 0, not used
 -10, 0   , 0, Rb.E2F
  11, 40   , 0, cdk2
  12, 0   , 0, cyE
 -13, 0   , 0, cyE.cdk2
  14, 0   , 0, cyE.cdk2.Rb.E2F
  15, 0   , 0, not used
  16, 2   , 0, E2FelCyEprom
  17, 400   , 0, pre-cyD
  18, 0   , 0, pre-Rb
  19, 0   , 0, degr prod
  20, 1   , 0, unitPrecurs
  21, 0   , 0, E2F.E2FelCyEprom
  22, 1   , 0, protease
  23, 0   , 0, E2F.protease
 -24, 0   , 0, cyEmRNA
  25, 0   , 0, cyE-P
  26, 0   , 0, E2FelE2Fprom
  27, 0   , 0, E2F.E2FelE2Fprom
  28, 0   , 0, E2FmRNA
  29, 0   , 0, ligand1
  30, 0   , 0, cyD.cdk4.Rb
   0,  0,  0, end
scan2
5
2,1,0,0,201,50
0,0,0,0,0,0
stop
stop