From 0fd58eda1e2dfd42e1a3015567634013ce74049c Mon Sep 17 00:00:00 2001 From: Mirek Kratochvil Date: Tue, 30 Jan 2024 09:54:55 +0100 Subject: [PATCH] fix headings --- docs/src/examples/05-enzyme-constrained-models.jl | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/docs/src/examples/05-enzyme-constrained-models.jl b/docs/src/examples/05-enzyme-constrained-models.jl index 358ef9d0..2e0cae4a 100644 --- a/docs/src/examples/05-enzyme-constrained-models.jl +++ b/docs/src/examples/05-enzyme-constrained-models.jl @@ -146,7 +146,7 @@ end #md #!!! warning "Turnover number units" #md # Take care with the units of the turnover numbers. In literature they are usually reported in 1/s. However, flux units are typically mmol/gDW/h, suggesting that you should rescale the turnover numbers to 1/h if you want to use the conventional flux units. -### Enzyme molar masses +# ## Enzyme molar masses # We also require the mass of each enzyme, to properly weight the contribution # of each flux/isozyme in the capacity bound(s). These data can typically be @@ -309,14 +309,14 @@ ecoli_core_gene_product_masses #md # !!! warning "Molar mass units" #md # Take care with the units of the molar masses. In literature they are usually reported in Da or kDa (g/mol). However, as noted above, flux units are typically mmol/gDW/h. Since the enzyme kinetic equation is `v = k * e`, where `k` is the turnover number, it suggests that the enzyme variable will have units of mmol/gDW. The molar masses come into play when setting the capacity limitations, e.g. usually a sum over all enzymes weighted by their molar masses: `e * mm`. Thus, if your capacity limitation has units of g/gDW, then the molar masses must have units of g/mmol (= kDa). -### Capacity limitation +# ## Capacity limitation # The capacity limitation usually denotes an upper bound of protein available to # the cell. total_enzyme_capacity = 50.0 # mg of enzyme/gDW -### Running a basic enzyme constrained model +# ## Running a basic enzyme constrained model # With all the parameters specified, we can directly use the enzyme constrained # convenience function to run enzyme constrained FBA in one shot: