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Result: 1 - 20 of 34 rows are displayed Previous of 2  Next

Pathway List for CamKII

Default ordering is done according to Pathway Name.Table header can be used for changing the default ordering.
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Entries are color tagged depending on Network  or Pathway 
#3#3#19#19#19#19#19#19#19#1#19#1#19#1#19#1#19#1#1#19
  Pathway Name
Pathway No.		Accession Name
Accession No.		Accession
Type		Pathway statisticsCamKII statisticsSource
Entry Date
1 CaMKIII_g
Pathway No. 1145		 syn_prot_
composite
Accession No. 109		PathwayMolecule = 2
Enzyme   = 0
Reaction  = 0
Molecule = 2
Enzyme   = 0
Reaction  = 0
Bhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621. /
2022-09-30 23:58:38
   Related Pathway: 
1151, 1159
    This model was used to generate fig 5 D to k, fig 6 in Bhalla US. HillTau: A fast, compact abstraction for model reduction in biochemical signaling networks. PLoS Comput Biol 2021 Nov 29;17(11):e1009621.
   
This pathway is part of accession 109 and is completely specified in the file acc109.g.
There is no separate file for just this pathway.
FormatFile
HillTau format    acc109.json   
2 CaMKIII_g
Pathway No. 1159		 syn_CaMKIII

Accession No. 114		PathwayMolecule = 2
Enzyme   = 0
Reaction  = 0
Molecule = 2
Enzyme   = 0
Reaction  = 0
Bhalla US. PLoS Comput Biol 2021 Nov 29;17(11):e1009621. /
2022-10-01 00:12:23
   Related Pathway: 
1145, 1151
    This model was used to generate Fig 3 supp A to F in Bhalla US. HillTau: A fast, compact abstraction for model reduction in biochemical signaling networks. PLoS Comput Biol 2021 Nov 29;17(11):e1009621.
   
This pathway is part of accession 114 and is completely specified in the file acc114.g.
There is no separate file for just this pathway.
FormatFile
HillTau format    acc114.json   
3 CaMKII
Pathway No. 80		 Synaptic_
Network
Accession No. 16		NetworkMolecule = 9
Enzyme   = 4
Reaction  = 3
Molecule = 8
Enzyme   = 4
Reaction  = 1
Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/
2001-12-12 00:00:00
   Related Pathway: 
13, 26, 106, 121, 145, 159, 174, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
    Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzymes look a bit complicated. Actually it is just 3 reactions for different sites, by 4 states of CaMKII, defined by the phosphorylation state. This model approximates the fact that the enzyme is actually present as a decamer/dodecamer. It does so by treating the autophosphorylation reactions as being independent of the concentration of CaMKII. Also the rates for the autophosphorylation steps have been scaled to fit this approximation.
   
This pathway is part of accession 16 and is completely specified in the file acc16.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc16.g   
GENESIS Format (Annotated version)    Anno_acc16.g   
4 CaMKII
Pathway No. 121		 Osc_Ca_
IP3metabolism
Accession No. 24		NetworkMolecule = 10
Enzyme   = 13
Reaction  = 3
Molecule = 8
Enzyme   = 8
Reaction  = 1
 Mishra J, Bhalla US. Biophys J. 2002 Sep;83(3):1298-316. ( peer-reviewed publication )/
2002-01-08 00:00:00
   Related Pathway: 
13, 26, 80, 106, 145, 159, 174, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
    Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzymes look a bit complicated. Actually it is just 3 reactions for different sites, by 4 states of CaMKII, defined by the phosphorylation state. This model approximates the fact that the enzyme is actually present as a decamer/dodecamer. It does so by treating the autophosphorylation reactions as being independent of the concentration of CaMKII. Also the rates for the autophosphorylation steps have been scaled to fit this approximation.
   
This pathway is part of accession 24 and is completely specified in the file acc24.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc24.g   
GENESIS Format (Annotated version)    Anno_acc24.g   
5 CaMKII
Pathway No. 159		 Osc_Ca_
IP3metabolism
Accession No. 32		NetworkMolecule = 10
Enzyme   = 13
Reaction  = 3
Molecule = 8
Enzyme   = 8
Reaction  = 1
 Mishra J, Bhalla US. Biophys J. 2002 Sep;83(3):1298-316. ( peer-reviewed publication )/
2002-04-03 00:00:00
   Related Pathway: 
13, 26, 80, 106, 121, 145, 174, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
    Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzymes look a bit complicated. Actually it is just 3 reactions for different sites, by 4 states of CaMKII, defined by the phosphorylation state. This model approximates the fact that the enzyme is actually present as a decamer/dodecamer. It does so by treating the autophosphorylation reactions as being independent of the concentration of CaMKII. Also the rates for the autophosphorylation steps have been scaled to fit this approximation.
   
This pathway is part of accession 32 and is completely specified in the file acc32.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc32.g   
GENESIS Format (Annotated version)    Anno_acc32.g   
6 CaMKII
Pathway No. 106		 NonOsc_Ca_
IP3metabolism
Accession No. 23		NetworkMolecule = 10
Enzyme   = 13
Reaction  = 3
Molecule = 8
Enzyme   = 8
Reaction  = 1
 Mishra J, Bhalla US. Biophys J. 2002 Sep;83(3):1298-316. ( peer-reviewed publication )/
2002-01-07 00:00:00
   Related Pathway: 
13, 26, 80, 121, 145, 159, 174, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
    Main reference here is the review by Hanson PI, Schulman H. Annu Rev Biochem. 1992;61:559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson PI, Schulman H. J Biol Chem. 1992 Aug 25;267(24):17216-24. The enzymes look a bit complicated. Actually it is just 3 reactions for different sites, by 4 states of CaMKII, defined by the phosphorylation state. This model approximates the fact that the enzyme is actually present as a decamer/dodecamer. It does so by treating the autophosphorylation reactions as being independent of the concentration of CaMKII. Also the rates for the autophosphorylation steps have been scaled to fit this approximation.
   
This pathway is part of accession 23 and is completely specified in the file acc23.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc23.g   
GENESIS Format (Annotated version)    Anno_acc23.g   
7 CaMKII
Pathway No. 145		 NonOsc_Ca_
IP3metabolism
Accession No. 31		NetworkMolecule = 10
Enzyme   = 13
Reaction  = 3
Molecule = 8
Enzyme   = 8
Reaction  = 1
 Mishra J, Bhalla US. Biophys J. 2002 Sep;83(3):1298-316. ( peer-reviewed publication )/
2002-04-03 00:00:00
   Related Pathway: 
13, 26, 80, 106, 121, 159, 174, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
    Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzymes look a bit complicated. Actually it is just 3 reactions for different sites, by 4 states of CaMKII, defined by the phosphorylation state. This model approximates the fact that the enzyme is actually present as a decamer/dodecamer. It does so by treating the autophosphorylation reactions as being independent of the concentration of CaMKII. Also the rates for the autophosphorylation steps have been scaled to fit this approximation.
   
This pathway is part of accession 31 and is completely specified in the file acc31.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc31.g   
GENESIS Format (Annotated version)    Anno_acc31.g   
8 CaMKII
Pathway No. 216		 MAPK_network_
2003
Accession No. 50		NetworkMolecule = 8
Enzyme   = 4
Reaction  = 3
Molecule = 7
Enzyme   = 4
Reaction  = 1
Bhalla US Biophys J. 2004 Aug;87(2):745-53. ( peer-reviewed publication )/
2003-04-28 00:00:00
   Related Pathway: 
13, 26, 80, 106, 121, 145, 159, 174, 202, 235, 245, 258, 264, 272, 282, 322, 339, 357
    Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzs look a terrible mess. Actually it is just 3 reactions for diff sites, by 4 states of CaMKII, defined by the phosph state.
   
FormatFile
Native Format (GENESIS format)    path216.g   
GENESIS Format (Annotated version)    Anno_path216.g   
MATLAB format    path216.m   
9 CaMKII
Pathway No. 26		 fig4_synapse

Accession No. 3		NetworkMolecule = 9
Enzyme   = 4
Reaction  = 3
Molecule = 8
Enzyme   = 4
Reaction  = 1
Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/
2001-11-07 00:00:00
   Related Pathway: 
13, 80, 106, 121, 145, 159, 174, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
    This is the composite model of 4 kinases: PKC, MAPK, PKA and CaMKII and numerous regulatory pathways involved in synaptic signaling. From Bhalla US and Iyengar R. Science (1999) 283(5400):381-7.This model comes from figure 4 of that paper.
Demonstration script files for generating the figures in the paper, including figure 4, are available here.
   
This pathway is part of accession 3 and is completely specified in the file acc3.g.
There is no separate files for just this pathway.
FormatFile
Native Format (GENESIS format)    acc3.g   
GENESIS Format (Annotated version)    Anno_acc3.g   
10 
  • Shared_Object_
    fig3_CaMKII
    Pathway No. 12
    		•  fig3_CaMKII

    Accession No. 2    		NetworkMolecule = 15
    Enzyme   = 16
    Reaction  = 0
    		Molecule = 1
    Enzyme   = 0
    Reaction  = 0
    		Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/
    2001-11-07 00:00:00
       Related Pathway: ------
        This is the model file for figure 3 from Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. It is a model of the Ca activation of CaMKII and other CaM-activated enzymes. It includes the regulatory phosphatases PP1 and PP2B (Calcineurin) acting on CaMKII and also includes CaM-activated adenylyl cyclase and PKA in the synapse.
    Demonstration script files for generating the figures in the paper, including figure 3, are available here.
       
    This pathway is part of accession 2 and is completely specified in the file acc2.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc2.g   
    GENESIS Format (Annotated version)    Anno_acc2.g   
    11 CaMKII
    Pathway No. 13    		 fig3_CaMKII

    Accession No. 2    		NetworkMolecule = 9
    Enzyme   = 4
    Reaction  = 3
    		Molecule = 8
    Enzyme   = 4
    Reaction  = 1
    		Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. ( peer-reviewed publication )/
    2001-11-07 00:00:00
       Related Pathway: 
    26, 80, 106, 121, 145, 159, 174, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
        This is the model file for figure 3 from Bhalla US and Iyengar R. Science (1999) 283(5400):381-7. It is a model of the Ca activation of CaMKII and other CaM-activated enzymes. It includes the regulatory phosphatases PP1 and PP2B (Calcineurin) acting on CaMKII and also includes CaM-activated adenylyl cyclase and PKA in the synapse.
    Demonstration script files for generating the figures in the paper, including figure 3, are available here.
       
    This pathway is part of accession 2 and is completely specified in the file acc2.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc2.g   
    GENESIS Format (Annotated version)    Anno_acc2.g   
    12 
  • Shared_Object_
    CaMKII_noPKA_
    model3
    Pathway No. 257
    		•  CaMKII_noPKA_
    model3
    Accession No. 62    		NetworkMolecule = 33
    Enzyme   = 28
    Reaction  = 13
    		Molecule = 14
    Enzyme   = 3
    Reaction  = 4
    		Hayer A, Bhalla US PLoS PLoS Comput Biol. 2005 Jul;1(2):137-54. Epub 2005 Jul 29. ( Peer-reviewed publication )/
    2005-07-19 00:00:00
       Related Pathway: ------
        This is the model of CaMKII bistability, model 3. It exhibits bistability in CaMKII activation due to autophosphorylation at the PSD and local saturation of PP1. This version of model 3 does not include the full PKA regulatory pathway, and instead has a predefined initial amount of active PKA.
       
    This pathway is part of accession 62 and is completely specified in the file acc62.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc62.g   
    MATLAB format    acc62.m   
    SBML format    acc62.xml   
    13 CaMKII
    Pathway No. 258    		 CaMKII_noPKA_
    model3
    Accession No. 62    		NetworkMolecule = 8
    Enzyme   = 4
    Reaction  = 2
    		Molecule = 7
    Enzyme   = 4
    Reaction  = 1
    		Hayer A, Bhalla US PLoS PLoS Comput Biol. 2005 Jul;1(2):137-54. Epub 2005 Jul 29. ( Peer-reviewed publication )/
    2005-07-19 00:00:00
       Related Pathway: 
    13, 26, 80, 106, 121, 145, 159, 174, 202, 216, 235, 245, 264, 272, 282, 322, 339, 357
        Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzs look a terrible mess. Actually it is just 3 reactions for diff sites, by 4 states of CaMKII, defined by the phosph state.
       
    This pathway is part of accession 62 and is completely specified in the file acc62.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc62.g   
    MATLAB format    acc62.m   
    SBML format    acc62.xml   
    14 
  • Shared_Object_
    CaMKII_model3
    Pathway No. 263
    		•  CaMKII_model3

    Accession No. 63    		NetworkMolecule = 36
    Enzyme   = 30
    Reaction  = 14
    		Molecule = 14
    Enzyme   = 3
    Reaction  = 4
    		Hayer A, Bhalla US PLoS Comput Biol. 2005 Jul;1(2):137-54. Epub 2005 Jul 29. ( Peer-reviewed publication )/
    2005-07-19 00:00:00
       Related Pathway: ------
        This is the complete model of CaMKII bistability, model 3. It exhibits bistability in CaMKII activation due to autophosphorylation at the PSD and local saturation of PP1. This version of model 3 includes PKA regulatory input. This has little effect on the deterministic calculations, but the PKA pathway introduces a lot of noise which causes a difference in stochastic runs.
       
    This pathway is part of accession 63 and is completely specified in the file acc63.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc63.g   
    MATLAB format    acc63.m   
    SBML format    acc63.xml   
    15 CaMKII
    Pathway No. 264    		 CaMKII_model3

    Accession No. 63    		NetworkMolecule = 8
    Enzyme   = 4
    Reaction  = 2
    		Molecule = 7
    Enzyme   = 4
    Reaction  = 1
    		Hayer A, Bhalla US PLoS Comput Biol. 2005 Jul;1(2):137-54. Epub 2005 Jul 29. ( Peer-reviewed publication )/
    2005-07-19 00:00:00
       Related Pathway: 
    13, 26, 80, 106, 121, 145, 159, 174, 202, 216, 235, 245, 258, 272, 282, 322, 339, 357
        Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzs look a terrible mess. Actually it is just 3 reactions for diff sites, by 4 states of CaMKII, defined by the phosph state.
       
    This pathway is part of accession 63 and is completely specified in the file acc63.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc63.g   
    MATLAB format    acc63.m   
    SBML format    acc63.xml   
    16 
  • Shared_Object_
    CaMKII_2003
    Pathway No. 201
    		•  CaMKII_2003

    Accession No. 49    		NetworkMolecule = 10
    Enzyme   = 14
    Reaction  = 0
    		Molecule = 0
    Enzyme   = 0
    Reaction  = 0
    		Bhalla US. Biophys J. 2004 Aug;87(2):733-44. ( peer-reviewed publication )./
    2003-04-28 00:00:00
       Related Pathway: ------
        Based on nonscaf_syn1.g. Stripped out everything except stuff which directly controls CaMKII. Designed to do doser of CaMKII vs Ca.
       
    This pathway is part of accession 49 and is completely specified in the file acc49.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc49.g   
    GENESIS Format (Annotated version)    Anno_acc49.g   
    MATLAB format    acc49.m   
    SBML format    acc49.xml   
    17 CaMKII
    Pathway No. 202    		 CaMKII_2003

    Accession No. 49    		NetworkMolecule = 8
    Enzyme   = 4
    Reaction  = 3
    		Molecule = 7
    Enzyme   = 4
    Reaction  = 1
    		Bhalla US. Biophys J. 2004 Aug;87(2):733-44. ( peer-reviewed publication )./
    2003-04-28 00:00:00
       Related Pathway: 
    13, 26, 80, 106, 121, 145, 159, 174, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
        Main reference here is the review by Hanson and Schulman, Ann Rev Biochem 1992 vol 61 pp 559-601. Most of the mechanistic details and a few constants are derived from there. Many kinetics are from Hanson and Schulman JBC 267:24 17216-17224 1992. The enzs look a terrible mess. Actually it is just 3 reactions for diff sites, by 4 states of CaMKII, defined by the phosph state.
       
    This pathway is part of accession 49 and is completely specified in the file acc49.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc49.g   
    GENESIS Format (Annotated version)    Anno_acc49.g   
    MATLAB format    acc49.m   
    SBML format    acc49.xml   
    18 
  • Shared_Object_
    CaMKIII
    Pathway No. 1093
    		•  CaMKIII

    Accession No. 90    		NetworkMolecule = 15
    Enzyme   = 5
    Reaction  = 3
    		Molecule = 4
    Enzyme   = 4
    Reaction  = 2
    		Jain P, and Bhalla, U.S. PLoS Comput Biol. 2009 Feb;5(2). ( Peer-reviewed publication )/
    2009-02-12 00:00:00
       Related Pathway: ------
        CaMKIII is activated by Ca2+ and inactivated by S6K. Since CaMKIII inhibits eEF2, the net effect of Ca2+ on elongation is inhibitory and of S6K is excitatory
       
    This pathway is part of accession 90 and is completely specified in the file acc90.g.
    There is no separate file for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc90.g   
    19 
  • Shared_Object_
    CaMKII
    Pathway No. 172
    		•  CaMKII

    Accession No. 33    		NetworkMolecule = 1
    Enzyme   = 0
    Reaction  = 0
    		Molecule = 0
    Enzyme   = 0
    Reaction  = 0
    		William R. Holmes J Comput Neurosci. (2000) 8(1):65-85 ( peer-reviewed publication )/
    2002-08-21 00:00:00
       Related Pathway: ------
        This is a deterministic, point kinetics approximation to the dendritic spine CaMKII model described in William R. Holmes J Comput Neurosci. (2000) 8(1):65-85. Rates are the same but the responses differ somewhat because this model does not include the stochastic and diffusive calculations of the original.
       
    This pathway is part of accession 33 and is completely specified in the file acc33.g.
    There is no separate files for just this pathway.
    FormatFile
    Native Format (GENESIS format)    acc33.g   
    GENESIS Format (Annotated version)    Anno_acc33.g   
    20 CaMKII
    Pathway No. 174    		 CaMKII

    Accession No. 33    		NetworkMolecule = 11
    Enzyme   = 2
    Reaction  = 14
    		Molecule = 8
    Enzyme   = 2
    Reaction  = 9
    		William R. Holmes J Comput Neurosci. (2000) 8(1):65-85 ( peer-reviewed publication )/
    2002-08-21 00:00:00
       Related Pathway: 
    13, 26, 80, 106, 121, 145, 159, 202, 216, 235, 245, 258, 264, 272, 282, 322, 339, 357
        This is a deterministic, point kinetics approximation to the dendritic spine CaMKII model described in William R. Holmes J Comput Neurosci. (2000) 8(1):65-85. Rates are the same but the responses differ somewhat because this model does not include the stochastic and diffusive calculations of the original.
       
    FormatFile
    Native Format (GENESIS format)    path174.g   
    GENESIS Format (Annotated version)    Anno_path174.g   
     
    Result: 1 - 20 of 34 rows are displayed Previous of 2  Next


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