Name: “Song_PNAS_2013”
Saved: Mon, 23 Sep 2013  12:39:58 GMT
vcell identifier: biomodel-84275910
Owned by: “rsong”

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Compartments, Species, Reactions
  • Compartment "IC".   (type: Volume)
    • Species "CaM_Ca4"
    • Species "PDE2_IBMX"
    • Species "Gap"
    • Species "R2C2_cAMP3"
    • Species "SoS_Pi_Grb2"
    • Species "PDE4_ERK_PKA"
    • Species "R2C2_cAMP"
    • Species "PP1"
    • Species "DARPP32_Pi_PP1"
    • Species "I1_Pi_PP1"
    • Species "PDE4_ERK"
    • Species "AMPAR_Bulk"
    • Species "IP3_degraded"
    • Species "IP3_14"
    • Species "PKC_active"
    • Species "PP2A"
    • Species "PP1_PDE"
    • Species "cAMP"
    • Species "U0126"
    • Species "DARPP32"
    • Species "Rolipram"
    • Species "R2C_cAMP4"
    • Species "PDE3_IBMX"
    • Species "R2_cAMP4"
    • Species "STEP_PKA"
    • Species "BRaf_Pi"
    • Species "PDE1_CaM_Ca4"
    • Species "GluR1_845_818"
    • Species "Raf"
    • Species "IBMX"
    • Species "PDEbg"
    • Species "PKA_active"
    • Species "PDE1_IBMX"
    • Species "GluR1_degraded"
    • Species "GluR1"
    • Species "MEK_Ser"
    • Species "ERK_Tyr"
    • Species "IP3_5pase1"
    • Species "PDE4_PKA"
    • Species "MEK"
    • Species "CaM"
    • Species "Four1N"
    • Species "PDE4_IBMX"
    • Species "I1_Pi"
    • Species "ERK"
    • Species "PDE4_Rolipram"
    • Species "PKA_Inhibitor"
    • Species "CaMKII_286_CaM"
    • Species "Ras_GDP"
    • Species "MEK_inhibited"
    • Species "R2C2_cAMP4"
    • Species "Ras_Raf_active"
    • Species "SoS_Grb2"
    • Species "ATP"
    • Species "GluR1_845"
    • Species "IP3_5Pase2"
    • Species "Shc"
    • Species "Ras_GTP"
    • Species "R2C2"
    • Species "CaMKII"
    • Species "BRaf"
    • Species "R2C2_cAMP2"
    • Species "PDE1"
    • Species "CaM_Ca2"
    • Species "PDE2"
    • Species "BDNF_TrkB2_Pi"
    • Species "ERK_active"
    • Species "Shc_Pi"
    • Species "IP3_145"
    • Species "MEK_active"
    • Species "AMP"
    • Species "Grb2"
    • Species "STEP"
    • Species "PDE3"
    • Species "Calcium"
    • Species "CaMKII_CaM"
    • Species "SoS"
    • Species "PDE4"
    • Species "CaMKII_286"
    • Species "SoS_Pi"
    • Species "PKA_inhibited"
    • Species "CaM_Ca3"
    • Species "I1"
    • Species "DARPP32_Pi"
    • Species "Shc_Pi_SoS_Grb2"
    • Species "PP2A_DI"
    • Reaction "091"   (CaM_Ca3 + Calcium → CaM_Ca4)
    • Reaction "r19"   (PDE1 + IBMX → PDE1_IBMX)
    • Reaction "r40"   (IP3_145 → IP3_14)
    • Reaction "057"   (DARPP32_Pi → DARPP32)
    • Reaction "087"   (R2C_cAMP4 → PKA_active + R2_cAMP4)
    • Reaction "r10"   (Rolipram + PDE4_ERK_PKA → PDE4_Rolipram)
    • Reaction "r21"   (IBMX + PDE4 → PDE4_IBMX)
    • Reaction "096"   (CaMKII_286 → CaMKII)
    • Reaction "056"   (DARPP32 → DARPP32_Pi)
    • Reaction "036"   (ERK → ERK_Tyr)
    • Reaction "r52"   (cAMP → AMP)
    • Reaction "078"   (cAMP → AMP)
    • Reaction "r38"   (IP3_145 → IP3_degraded)
    • Reaction "r12"   (cAMP → AMP)
    • Reaction "r6"   (PDE3 + IBMX → PDE3_IBMX)
    • Reaction "100"   (AMPAR_Bulk → GluR1)
    • Reaction "r11"   (Rolipram + PDE4_PKA → PDE4_Rolipram)
    • Reaction "r55"   (PDE4_ERK_PKA → PDE4)
    • Reaction "011"   (Shc → Shc_Pi)
    • Reaction "012"   (SoS → SoS_Pi)
    • Reaction "097"   (CaMKII_286_CaM → CaMKII_CaM)
    • Reaction "023"   (Ras_GTP → Ras_GDP)
    • Reaction "084"   (R2C2_cAMP2 + cAMP → R2C2_cAMP3)
    • Reaction "098"   (PDE1 + CaM_Ca4 → PDE1_CaM_Ca4)
    • Reaction "081"   (cAMP → AMP)
    • Reaction "077"   (cAMP → AMP)
    • Reaction "032"   (MEK_Ser → MEK)
    • Reaction "008"   (SoS_Pi + Grb2 → SoS_Pi_Grb2)
    • Reaction "006"   (Shc_Pi → Shc)
    • Reaction "046"   (PDE4_PKA → PDE4)
    • Reaction "060"   (I1 → I1_Pi)
    • Reaction "018"   (Ras_GDP → Ras_GTP)
    • Reaction "r48"   (cAMP → AMP)
    • Reaction "045"   (PDE4 → PDE4_PKA)
    • Reaction "009"   (SoS_Pi → SoS)
    • Reaction "r50"   (cAMP → AMP)
    • Reaction "r56"   (GluR1_845_818 → GluR1_845)
    • Reaction "007"   (SoS_Grb2 + Shc_Pi → Shc_Pi_SoS_Grb2)
    • Reaction "106"   (GluR1 → GluR1_845)
    • Reaction "088"   (PKA_active + PKA_Inhibitor → PKA_inhibited)
    • Reaction "r24"   (PDE4_ERK + IBMX → PDE4_IBMX)
    • Reaction "r22"   (PDE4_PKA + IBMX → PDE4_IBMX)
    • Reaction "010"   (Grb2 + SoS → SoS_Grb2)
    • Reaction "r18"   (DARPP32_Pi + PP1 → DARPP32_Pi_PP1)
    • Reaction "r49"   (ERK_active → ERK_Tyr)
    • Reaction "034"   (MEK → MEK_Ser)
    • Reaction "063"   (BRaf_Pi → BRaf)
    • Reaction "r47"   (DARPP32_Pi_PP1 → PP1 + DARPP32)
    • Reaction "095"   (CaMKII_CaM → CaMKII_286_CaM)
    • Reaction "r51"   (PDE2 + IBMX → PDE2_IBMX)
    • Reaction "029"   (MEK_Ser → MEK_active)
    • Reaction "089"   (CaM + 2 Calcium → CaM_Ca2)
    • Reaction "r53"   (I1_Pi + PP1 → I1_Pi_PP1)
    • Reaction "082"   (R2C2 + cAMP → R2C2_cAMP)
    • Reaction "040"   (STEP → STEP_PKA)
    • Reaction "r9"   (PDE4 + Rolipram → PDE4_Rolipram)
    • Reaction "052"   (PDE4_ERK → PDE4_ERK_PKA)
    • Reaction "079"   (cAMP → AMP)
    • Reaction "037"   (ERK_Tyr → ERK_active)
    • Reaction "016"   (Ras_GTP + Raf → Ras_Raf_active)
    • Reaction "093"   (CaMKII_286 + CaM_Ca4 → CaMKII_286_CaM)
    • Reaction "r54"   (I1_Pi_PP1 → PP1 + I1)
    • Reaction "080"   (cAMP → AMP)
    • Reaction "049"   (PDE4_PKA → PDE4_ERK_PKA)
    • Reaction "r16"   (MEK + U0126 → MEK_inhibited)
    • Reaction "r39"   (IP3_145 → IP3_14)
    • Reaction "047"   (PDE4 → PDE4_ERK)
    • Reaction "r5"   (PDE1_CaM_Ca4 + IBMX → PDE1_IBMX)
    • Reaction "044"   (ERK_Tyr → ERK)
    • Reaction "083"   (cAMP + R2C2_cAMP → R2C2_cAMP2)
    • Reaction "090"   (CaM_Ca2 + Calcium → CaM_Ca3)
    • Reaction "028"   (MEK → MEK_Ser)
    • Reaction "094"   (CaMKII → CaMKII_286)
    • Reaction "035"   (MEK_Ser → MEK_active)
    • Reaction "033"   (MEK_active → MEK_Ser)
    • Reaction "r14"   (MEK_Ser + U0126 → MEK_inhibited)
    • Reaction "r15"   (MEK_active + U0126 → MEK_inhibited)
    • Reaction "108"   (GluR1_845 → GluR1)
    • Reaction "r57"   (GluR1_845 → GluR1_845_818)
    • Reaction "r8"   (Rolipram + PDE4_ERK → PDE4_Rolipram)
    • Reaction "r23"   (PDE4_ERK_PKA + IBMX → PDE4_IBMX)
    • Reaction "061"   (I1_Pi → I1)
    • Reaction "014"   (Ras_GTP → Ras_GDP)
    • Reaction "062"   (BRaf → BRaf_Pi)
    • Reaction "099"   (PDE1_CaM_Ca4 → PDE1)
    • Reaction "086"   (R2C2_cAMP4 → PKA_active + R2C_cAMP4)
    • Reaction "048"   (PDE4_ERK → PDE4)
    • Reaction "043"   (ERK_Tyr → ERK)
    • Reaction "085"   (R2C2_cAMP3 + cAMP → R2C2_cAMP4)
    • Reaction "092"   (CaM_Ca4 + CaMKII → CaMKII_CaM)
    • Reaction "041"   (STEP_PKA → STEP)
  • Compartment "EC".   (type: Volume)
    • Species "BDNF"
    • Species "Da"
    • Species "Fsk"
  • Compartment "ER".   (type: Volume)
    • Species "Calcium_ER"
  • Compartment "PM".   (type: Membrane)
    • Species "Gby"
    • Species "AC5_Ga"
    • Species "D1LR_Gqby"
    • Species "GluR1_Membrane"
    • Species "Gqby"
    • Species "PLC"
    • Species "PLC_Ca"
    • Species "PLC_Ca_Gq"
    • Species "AC_basal"
    • Species "G_by"
    • Species "Gq_GDP"
    • Species "Da_D5R"
    • Species "Gaby"
    • Species "Da_D5R_Gaby"
    • Species "AC5"
    • Species "BDNF_TrkB"
    • Species "AC5_Fsk"
    • Species "D1R_Gaby"
    • Species "Gq_GTP"
    • Species "TrkB"
    • Species "D1LR"
    • Species "PLC_Gq"
    • Species "Ga_GDP"
    • Species "D5R_Gaby"
    • Species "BDNF_TrkB2"
    • Species "Ga_GTP"
    • Species "Da_D1R_Gaby"
    • Species "D1R"
    • Species "PIP2"
    • Species "Da_D1LR_Gqby"
    • Species "Int_TrkB2"
    • Species "DAG"
    • Species "Da_D1R"
    • Species "D5R"
    • Species "GluR1_Membrane_dephosphorylated1"
    • Species "Da_D1LR"
    • Reaction "005"   (Int_TrkB2 → TrkB)
    • Reaction "r20"   (Da + D1LR_Gqby → Da_D1LR_Gqby)
    • Reaction "r28"   (Da_D1LR_Gqby → G_by + Da_D1LR + Gq_GTP)
    • Reaction "r7"   (AC5 + Fsk → AC5_Fsk)
    • Reaction "064"   (Da + D1R → Da_D1R)
    • Reaction "103"   (Four1N + GluR1_845_818 → GluR1_Membrane)
    • Reaction "073"   (Ga_GDP + Gby → Gaby)
    • Reaction "r0"   (Da_D5R_Gaby → Da_D5R + Gby + Ga_GTP)
    • Reaction "r3"   (ATP → cAMP)
    • Reaction "071"   (Da_D5R + Gaby → Da_D5R_Gaby)
    • Reaction "002"   (TrkB + BDNF_TrkB → BDNF_TrkB2)
    • Reaction "r35"   (PLC + Calcium → PLC_Ca)
    • Reaction "001"   (BDNF + TrkB → BDNF_TrkB)
    • Reaction "r36"   (PLC_Gq → Gq_GDP + PLC)
    • Reaction "r26"   (Da + D1LR → Da_D1LR)
    • Reaction "104"   (GluR1_Membrane_dephosphorylated1 → GluR1 + Four1N)
    • Reaction "r27"   (Da_D1LR + Gqby → Da_D1LR_Gqby)
    • Reaction "075"   (Ga_GTP + AC5 → AC5_Ga)
    • Reaction "004"   (BDNF_TrkB2_Pi → Int_TrkB2)
    • Reaction "r37"   (PLC_Gq + Calcium → PLC_Ca_Gq)
    • Reaction "r32"   (PIP2 → DAG + IP3_145)
    • Reaction "r29"   (Gq_GDP + G_by → Gqby)
    • Reaction "067"   (D1R_Gaby + Da → Da_D1R_Gaby)
    • Reaction "r31"   (PIP2 → IP3_145 + DAG)
    • Reaction "r34"   (PLC + Gq_GTP → PLC_Gq)
    • Reaction "r1"   (ATP → cAMP)
    • Reaction "105"   (GluR1_Membrane → GluR1_degraded)
    • Reaction "065"   (Gaby + D1R → D1R_Gaby)
    • Reaction "r33"   (PIP2 → DAG + IP3_145)
    • Reaction "070"   (Da + D5R_Gaby → Da_D5R_Gaby)
    • Reaction "r30"   (Gq_GTP → Gq_GDP)
    • Reaction "069"   (Gaby + D5R → D5R_Gaby)
    • Reaction "r4"   (ATP → cAMP)
    • Reaction "074"   (Ga_GTP → Ga_GDP)
    • Reaction "072"   (Da_D1R_Gaby → Gby + Ga_GTP + Da_D1R)
    • Reaction "068"   (D5R + Da → Da_D5R)
    • Reaction "003"   (BDNF_TrkB2 → BDNF_TrkB2_Pi)
    • Reaction "r13"   (Gqby + D1LR → D1LR_Gqby)
    • Reaction "066"   (Gaby + Da_D1R → Da_D1R_Gaby)
    • Reaction "r17"   (GluR1_Membrane → GluR1_Membrane_dephosphorylated1)
    • Reaction "r25"   (ATP → cAMP)
  • Compartment "ER_Membrane".   (type: Membrane)
    • Species "IP3R"
    • Species "IP3R_open"
    • Species "SERCA"
    • Species "SERCA_active"
    • Reaction "r44"   (Calcium → Calcium_ER)
    • Reaction "r43"   (Calcium_ER → Calcium)
    • Reaction "r45"   (Calcium_ER → Calcium)
    • Reaction "r42"   (SERCA + Calcium → SERCA_active)
    • Reaction "r41"   (IP3R + 3 IP3_145 → IP3R_open)
2018-07-12T19:23:21+00:00 February 16th, 2018|biomodel|