| |
Pathway Name
Pathway No. | Accession Name
Accession No. | Accession
Type | Pathway statistics | CamKII statistics | Source
Entry Date |
| 21 | CaMKII
Pathway No. 272 | AMPAR_CaMKII_
strong_coupling
Accession No. 64 | Network | Molecule = 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 |
| | #19Related Pathway:
13, 26, 80, 106, 121, 145, 159, 174, 202, 216, 235, 245, 258, 264, 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 64 and is completely specified in the file acc64.g.
There is no separate files for just this pathway. |
|
| 22 | Shared_Object_
CaMKII_2003
Pathway No. 201 | CaMKII_2003
Accession No. 49 | Network | Molecule = 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 |
| | #1Related 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. |
|
| 23 | CaMKII
Pathway No. 202 | CaMKII_2003
Accession No. 49 | Network | Molecule = 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 |
| | #19Related 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. |
|
| 24 | CaMKII
Pathway No. 216 | MAPK_network_
2003
Accession No. 50 | Network | Molecule = 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 |
| | #19Related 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. |
| | |
| 25 | Shared_Object_
CaMKII
Pathway No. 172 | CaMKII
Accession No. 33 | Network | Molecule = 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 |
| | #1Related 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. |
| Format | File | | Native Format (GENESIS format) | acc33.g | | GENESIS Format (Annotated version) | Anno_acc33.g |
|
| 26 | CaMKII
Pathway No. 174 | CaMKII
Accession No. 33 | Network | Molecule = 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 |
| | #19Related 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. |
| | |
| 27 | CaMKII
Pathway No. 145 | NonOsc_Ca_
IP3metabolism
Accession No. 31 | Network | Molecule = 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 |
| | #19Related 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. |
| Format | File | | Native Format (GENESIS format) | acc31.g | | GENESIS Format (Annotated version) | Anno_acc31.g |
|
| 28 | CaMKII
Pathway No. 159 | Osc_Ca_
IP3metabolism
Accession No. 32 | Network | Molecule = 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 |
| | #19Related 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. |
| Format | File | | Native Format (GENESIS format) | acc32.g | | GENESIS Format (Annotated version) | Anno_acc32.g |
|
| 29 | CaMKII
Pathway No. 121 | Osc_Ca_
IP3metabolism
Accession No. 24 | Network | Molecule = 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 |
| | #19Related 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. |
| Format | File | | Native Format (GENESIS format) | acc24.g | | GENESIS Format (Annotated version) | Anno_acc24.g |
|
| 30 | CaMKII
Pathway No. 106 | NonOsc_Ca_
IP3metabolism
Accession No. 23 | Network | Molecule = 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 |
| | #19Related 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. |
| Format | File | | Native Format (GENESIS format) | acc23.g | | GENESIS Format (Annotated version) | Anno_acc23.g |
|
| 31 | CaMKII
Pathway No. 80 | Synaptic_
Network
Accession No. 16 | Network | Molecule = 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 |
| | #19Related 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. |
| Format | File | | Native Format (GENESIS format) | acc16.g | | GENESIS Format (Annotated version) | Anno_acc16.g |
|
| 32 | Shared_Object_
fig3_CaMKII
Pathway No. 12 | fig3_CaMKII
Accession No. 2 | Network | Molecule = 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 |
| | #1Related 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. |
| Format | File | | Native Format (GENESIS format) | acc2.g | | GENESIS Format (Annotated version) | Anno_acc2.g |
|
| 33 | CaMKII
Pathway No. 13 | fig3_CaMKII
Accession No. 2 | Network | Molecule = 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 |
| | #19Related 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. |
| Format | File | | Native Format (GENESIS format) | acc2.g | | GENESIS Format (Annotated version) | Anno_acc2.g |
|
| 34 | CaMKII
Pathway No. 26 | fig4_synapse
Accession No. 3 | Network | Molecule = 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 |
| | #19Related 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. |
| Format | File | | Native Format (GENESIS format) | acc3.g | | GENESIS Format (Annotated version) | Anno_acc3.g |
|
or Pathway 