DOQCS database

Pathway Name	PKM
Pathway Entry Number	652
Accession Number	82
Accession Name	Ajay_Bhalla_2007_ReacDiff1_1e-13
Species	Rat
Tissue	Hippocampal CA1
CellCompartment	Dendrite
Related Pathways	328, 346, 374, 380, 387, 393, 399, 406, 412, 419, 424, 429, 435, 441, 447, 453, 459, 465, 471, 477, 483, 489, 495, 501, 507, 513, 519, 525, 531, 538, 544, 550, 556, 562, 569, 574, 580, 586, 592, 598, 604, 610, 616, 622, 628, 634, 640, 646, 658, 664, 670, 676, 682, 689, 696, 702, 707, 713, 719, 725, 731, 737, 743, 749, 755, 761, 767, 773, 779, 785, 791, 797, 803, 809, 815, 821, 827, 833, 839, 845, 851, 857, 863, 869, 875, 881, 887, 893, 899, 905, 911, 917
Notes	This is a 25-compartment reaction-diffusion version of the Ajay_Bhalla_2007_PKM model. The original single-compartment model is repeated 25 times. In addition, a subset (27 out of 42) molecules can diffuse between compartments. Diffusion is implemented as a reaction between corresponding molecules in neighboring compartments. For D = 1e-12 m^2/sec (i.e., 1 micron^2/sec ) the kf and kb of this reaction for these 10 micron compartments are both 0.01/sec. For D = 1e-13 m^2/sec (i.e., 0.1 micron^2/sec ) the kf and kb are 0.001/sec. The stimulus file pkm_mapk22_diff_1e-13_Fig4B which was used for the model to replicate Figure 4B from the paper. pkm_mapk22_diff_1e-13_Fig4H replicate Figure 4H. pkm_mapk22_diff_1e-13_Fig4I replicate Figure 4I.

Statistics

Molecules	Enzyme sites	Reactions
6	2	3

Conversion format

This pathway is part of accession 82 and is completely specified in the file acc82.g.
There is no separate for just this pathway.

Format

File

Pathway Detail Molecule List Enzyme List Reaction List

Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
This Copyright is applied to ensure that the contents of this database remain freely available. Please see FAQ for details.