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Model repository

Models

+ Miyoshi et al. 2007
+ Plyusnina et al. (in prep.)
+ Hertel et al. 2013
+ Jablonsky et al. 2014
+ Clark et al. 2014 (in progress)
+ Fridlyand et al. 1995
o Grimaud et al. 2014
o E-cyano team 2017, clock & C-N metabolism
o Müller et al. 2019

Matrix analysis of Jablonsky et al. 2014

This page displays elementary flux modes analysis for selected model.

You can view information about desired mode clicking on it. Information about corresponding reactions will unfold.

You can also download SBRML file clicking on link below.


Modes
List of Matrix:

+1# Reversible
Reactions:
-1 * GL_2a : GAP + NADPp + Pi ↔ BPGA + NADPH, GAP + NADPp = PGA + NADPH
1 * GL_2b : GAP + NADPp + Pi ↔ BPGA + NADPH, GAP + NADPp = PGA + NADPH
+2# Reversible
Reactions:
-1 * GL_3a : 3PGA ↔ 2PGA, PGA = ppGA
1 * GL_3b : 3PGA ↔ 2PGA, PGA = ppGA
+3# Reversible
Reactions:
-1 * GL_3a : 3PGA ↔ 2PGA, PGA = ppGA
1 * GL_3c : 3PGA ↔ 2PGA, PGA = ppGA
+4# Reversible
Reactions:
-1 * GL_3b : 3PGA ↔ 2PGA, PGA = ppGA
1 * GL_3c : 3PGA ↔ 2PGA, PGA = ppGA
+5# Irreversible
Reactions:
1 * GL_2a : GAP + NADPp + Pi ↔ BPGA + NADPH, GAP + NADPp = PGA + NADPH
1 * CC_3 : BPGA + NADPH ↔ GAP + NADPp + Pi, BPGA + NADPH -> GAP + NADPp + Pi
1 * CC_2 : 3PGA + ATP → BPGA + ADP, PGA + ATP -> BPGA + ADP
1 * LIGHT_1 : ADP + Pi → ATP, ADP + Pi -> ATP
+6# Irreversible
Reactions:
1 * GL_2b : GAP + NADPp + Pi ↔ BPGA + NADPH, GAP + NADPp = PGA + NADPH
1 * CC_3 : BPGA + NADPH ↔ GAP + NADPp + Pi, BPGA + NADPH -> GAP + NADPp + Pi
1 * CC_2 : 3PGA + ATP → BPGA + ADP, PGA + ATP -> BPGA + ADP
1 * LIGHT_1 : ADP + Pi → ATP, ADP + Pi -> ATP

Analysis data:     SBRML
Please use the following reference to cite this web site:
M. Trojak, D. Safranek, J. Hrabec, J. Salagovic, F. Romanovska, J. Cerveny: E-Cyanobacterium.org: A Web-Based Platform for Systems Biology of Cyanobacteria. In: Computational Methods in Systems Biology, CMSB 2016, Vol. 9859 of LNCS, pp. 316-322. Springer, 2016. DOI