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Molecule List for Accession AMPAR_CaMKII_weak_coupling (Accession Number65)

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The entries are grouped according to Pathway Number and are alternately color coded using  and  color.
  NamePathway Name / 
Pathway No.		Accession
Type		Initial
Conc.
(uM)		Volume
(fL)		BufferedSum Total Of
1 
  • basal_CaMKII_
    cyt
    		•  CaMKII

    Pathway No. 282    		Network20.09Yes- 
    2 ATP AC

    Pathway No. 289    		Network20000.09Yes- 
        ATP is present in all cells between 2 and 10 mM. See Lehninger
    3 temp-PIP2
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network2.50.09Yes- 
        This isn't explicitly present in the M&L model, but is obviously needed. I assume its conc is fixed at 1uM for now, which is a bit high. PLA2 is stim 7x by PIP2 @ 0.5 uM (Leslie and Channon BBA 1045:261(1990) Leslie and Channon say PIP2 is present at 0.1 - 0.2mol% range in membs, which comes to 50 nM. Ref is Majerus et al Cell 37 pp 701-703 1984 Lets use a lower level of 30 nM, same ref....
    4 AMPAR_deg AMPAR

    Pathway No. 287    		Network00.09Yes- 
    5 PKC-control
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network0.10.09Yes- 
    6 Ca_control_cyt
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network0.080.09Yes- 
    7 Ca_control_PSD
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network0.080.01Yes- 
    8 AMPAR_bulk
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network0.00935Yes- 
    9 
  • basal_CaMKII_
    PSD_control
    		•  CaMKII_PSD

    Pathway No. 292    		Network20.01Yes- 
    10 CaM-Ca4
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network00.09No- 
    11 PP1-active
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network1.80.09No- 
        Cohen et al Meth Enz 159 390-408 is main source of info conc = 1.8 uM
    12 cAMP
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network00.09No- 
        The conc of this has been a problem. Schaecter and Benowitz use 50 uM, but Shinomura et al have < 5. So I have altered the cAMP-dependent rates in the PKA model to reflect this.
    13 Ca
  • Shared_Object_
    AMPAR_CaMKII_
    weak_coupling
    Pathway No. 281
    		• Network0.080.09No- 
    14 CaMKII CaMKII

    Pathway No. 282    		Network200.09No- 
        Huge conc of CaMKII. In PSD it is 20-40% of protein, so we assume it is around 2.5% of protein in spine as a whole. This level is so high it is unlikely to matter much if we are off a bit. This comes to about 70 uM.
    15 CaMKII-CaM CaMKII

    Pathway No. 282    		Network00.09No- 
    16 
  • CaMKII-thr286*-C
    aM
    		•  CaMKII

    Pathway No. 282    		Network00.09No- 
        From Hanson and Schulman, the thr286 is responsible for autonomous activation of CaMKII.
    17 CaMKII*** CaMKII

    Pathway No. 282    		Network00.09No- 
        From Hanson and Schulman, the CaMKII does a lot of autophosphorylation just after the CaM is released. This prevents further CaM binding and renders the enzyme quite independent of Ca.
    18 CaMKII-thr286 CaMKII

    Pathway No. 282    		Network00.09No- 
        I am not sure if we need to endow this one with a lot of enzs. It is likely to be a short-lived intermediate, since it will be phosphorylated further as soon as the CAM falls off.
    19 CaMK-thr305 CaMKII

    Pathway No. 282    		Network00.09No- 
        This forms due to basal autophosphorylation, but I think it has to be considered as a pathway even if some CaM is floating around. In either case it will tend to block further binding of CaM, and will not display any enzyme activity. See Hanson and Schulman JBC 267:24 pp17216-17224 1992
    20 CaM CaM

    Pathway No. 283    		Network26.33330.09No- 
        There is a LOT of this in the cell: upto 1% of total protein mass. (Alberts et al) Say 25 uM. Meyer et al Science 256 1199-1202 1992 refer to studies saying it is comparable to CaMK levels.
     
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