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Molecule Parameter List for IFN

The statistics table lists the distribution of a molecule acting either as a substrate, product, enzyme or as a molecule within the network.
The text color of a molecule is highlighted by color.
Statistics
IFN participated asMoleculeSum total ofEnzymeSubstrate of an enzymeProduct of an enzymeSubstrate in ReactionProduct in Reaction
No. of occurrences1000020

Accession and Pathway Details
Accession NameAccession No.Accession TypePathway Link
SOCS1_knockout67Pathway
SOCS1_knockout 
This model was taken from the Yamada S et al. FEBS Letters 2003 Jan 16;534(1-3):190-6
This model shows the control mechanism of Jak-Stat pathway, here SOCS1 (Suppressor of cytokine signaling-I) was identified as the negative regulator of Jak and STAT signal transduction pathway. This is the knockout version of Jak-Stat pathway in this model the SOCS1 has been knocked out i.e it formation is not shown.
The graphs are almost similar to the graphs as shown in the paper but STAT1n graph has some ambiguities. Thanks to Dr Satoshi Yamada for clarifying some of those ambiguities and providing the values used in the simulations.

IFN acting as a Molecule in  
SOCS1_knockout Network
NameAccession NamePathway NameInitial Conc.
(uM)
Volume
(fL)
Buffered
IFNSOCS1_knockout
Accession No. : 67
SOCS1_knockout
Pathway No. : 294
0.010.0016667Yes
IFN gamma liganding to the IFN gamma receptor that has JAK bound to its intracellular domain IFN = 10nM = 0.01uM Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196

IFN acting as a Substrate in a reaction in  
SOCS1_knockout Network
Kd is calculated only for second order reactions, like nA+nB <->nC or nA<->nC+nD, where n is number and A,B,C,D are molecules, where as for first order reactions Keq is calculated. Kd for higher order reaction are not consider.
 NameAccession NamePathway NameKfKbKdtauReagents
1IFN_bindingSOCS1_knockout
Accession No. : 67
SOCS1_knockout
Pathway No. : 294
20
(uM^-1 s^-1)
0.02
(s^-1)
Kd(bf) = 0.001(uM)-Substrate
IFN
RJ

Product
IFNRJ
  Binding of JAK to the intracellular domain of the IFN gamma receptor Kf = 20*10e+06 /M/sec = 20/uM/sec Kb = 0.02 /sec Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196
2IFN-R_bindSOCS1_knockout
Accession No. : 67
SOCS1_knockout
Pathway No. : 294
20
(uM^-1 s^-1)
0.02
(s^-1)
Kd(bf) = 0.001(uM)-Substrate
IFN
R

Product
IFNR
  Binding reaction of IFN + R kf = 20/sec/uM kb = 0.02/sec Appendix, Satoshi Yamada et al 2003 FEBS Letters 534:190-196.



Database compilation and code copyright (C) 2022, Upinder S. Bhalla and NCBS/TIFR
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