Difference between revisions of "Hexose-6-phosphate isomerase"
(→Parameters with uncertainty) |
(→Parameters with uncertainty) |
||
Line 59: | Line 59: | ||
* The uncertainty of <math>V_{mr}</math> and <math>Km_{Fru6P}</math> for HeLa cell line are calculated based on the same proportion of uncertainty for AS-30D cell reported in the paper Marín-Hernández ''et. al.'', ''Modeling cancer glycolysis'' <ref name="Hernandez2011"></ref>. | * The uncertainty of <math>V_{mr}</math> and <math>Km_{Fru6P}</math> for HeLa cell line are calculated based on the same proportion of uncertainty for AS-30D cell reported in the paper Marín-Hernández ''et. al.'', ''Modeling cancer glycolysis'' <ref name="Hernandez2011"></ref>. | ||
− | *The value of <math>Ki_{Ery4P}</math>, <math>Ki_{Fru1,6BP}</math> and <math>Ki_{6PG}</math> are the averaged from the forward and reverse reaction value listed in Table S6 <ref name="Hernandez2011"></ref>. | + | * The value of <math>Ki_{Ery4P}</math>, <math>Ki_{Fru1,6BP}</math> and <math>Ki_{6PG}</math> are the averaged from the forward and reverse reaction value listed in Table S6 <ref name="Hernandez2011"></ref>. |
− | *The uncertainty for <math>Ki_{Ery4P}</math> in HeLa cell line is mentioned only in the forward reaction which is 0.07. The mean value is calcualated as <math>\frac{1 + 0.86}{2}</math> and the standard deviaton is calculated based on the same ratio mentioned in forward reaction which comes as <math>0.0009 pm 0.000063</math>. The same ratio | + | * The uncertainty for <math>Ki_{Ery4P}</math> in HeLa cell line is mentioned only in the forward reaction which is 0.07. The mean value is calcualated as <math>\frac{1 + 0.86}{2}</math> and the standard deviaton is calculated based on the same ratio mentioned in forward reaction which comes as <math>0.0009 \pm 0.000063</math>. |
+ | |||
+ | * Same principle is used for <math>Ki_{6PG}</math>. The mean value is <math> \frac{0.0176+0.0155}{2} = 0.017 </math> and the standard deviation is calculted based on the same ratio of reverse reaction for HeLa cell line; 0.0043 <math></math> | ||
+ | The Xyl5P content is reported as <math>0.016\pm 0.0034</math> <ref name="Reitzer_1980">L.J. Reitzer, B.M. Wice, D. Kennell (1980), ''The pentose cycle'', J. Biol. Chem. 255 5616–5626</ref> and <math>Ki_{Ery4P}</math> is reported as 0.001. The ratio is determined as 0.0625. The standard deviation then comes as 0.0002125. Same principle is used for <math>Ki_{6PG}</math> where first the standard deviation for 6PG in HeLa cell line is calcualted based on the error ratio of AS-30D which is <math>0.39 \pm 0.144</math>. The standard deviation for <math>Ki_{6PG}</math> then comes as 0.005. There are two reported value for <math>Ki_{Fru1,6BP}</math>; 0.1<ref name ="Hernandez_2009">Marin-Hernandez, A., Gallardo-Perez, J. C., Ralph, S. J., Rodriguez-Enriquez, S. & Moreno-Sanchez, R. (2009), ''HIF-1α modulates energy metabolism in cancer cells by inducing over-expression of specific glycolytic isoforms.'' Mini-Rev. Med. Chem. 9, 1084–1101</ref>, 0.06<ref name="Hernandez2011"></ref>. The mean and standard deviation are calcualted from these two values. | ||
{|class="wikitable" | {|class="wikitable" | ||
Line 93: | Line 96: | ||
|- | |- | ||
|<math>Ki_{6PG}</math> | |<math>Ki_{6PG}</math> | ||
− | |<math>0. | + | |<math>0.017 \pm 0.0043 </math><ref name="Hernandez2011"></ref> |
|mM | |mM | ||
|} | |} |
Revision as of 10:10, 24 April 2014
The enzyme Hexose-6-phosphate isomerase converts Glucose 6-phosphate (Glc6P) into its isomer Fructose 6-phosphate (Fru6P). Isomers have the same molecular formula, but the atoms of each molecule are arranged differently.
Contents
Chemical reaction
Rate equation
Reversible competitive inhibition with Ery4P, 6PG and FBP. [1]
Parameter values
Parameter | Value | Units | Organism | Remarks |
---|---|---|---|---|
0.4 [1] | HeLa cell line | 3 cell assays | ||
0.9[1] | 1 cell assay | |||
0.4 0.03 mM[1] | mM | 3 cell assays | ||
0.05[1] | mM | 2 cell assays | ||
0.001[1] | mM | Adjusted in the interval based on activity[1] | ||
0.06[1] | mM | Adjusted in the interval based on activity[1] | ||
0.015[1] | mM | Adjusted in the interval based on activity[1] |
Parameters with uncertainty
- The uncertainty of and for HeLa cell line are calculated based on the same proportion of uncertainty for AS-30D cell reported in the paper Marín-Hernández et. al., Modeling cancer glycolysis [1].
- The value of , and are the averaged from the forward and reverse reaction value listed in Table S6 [1].
- The uncertainty for in HeLa cell line is mentioned only in the forward reaction which is 0.07. The mean value is calcualated as Failed to parse (Cannot store math image on filesystem.): \frac{1 + 0.86}{2} and the standard deviaton is calculated based on the same ratio mentioned in forward reaction which comes as .
- Same principle is used for . The mean value is and the standard deviation is calculted based on the same ratio of reverse reaction for HeLa cell line; 0.0043
The Xyl5P content is reported as Failed to parse (Cannot store math image on filesystem.): 0.016\pm 0.0034 [2] and is reported as 0.001. The ratio is determined as 0.0625. The standard deviation then comes as 0.0002125. Same principle is used for where first the standard deviation for 6PG in HeLa cell line is calcualted based on the error ratio of AS-30D which is Failed to parse (Cannot store math image on filesystem.): 0.39 \pm 0.144 . The standard deviation for then comes as 0.005. There are two reported value for ; 0.1[3], 0.06[1]. The mean and standard deviation are calcualted from these two values.
Parameter | Value | Units |
---|---|---|
[1] | ||
Failed to parse (Cannot store math image on filesystem.): 2.8 \pm 0.9058 [1] | ||
mM[1] | mM | |
[1] | mM | |
Failed to parse (Cannot store math image on filesystem.): 0.0009 pm 0.000063 [1] | mM | |
mM | ||
[1] | mM |
Refences
- ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 Marín-Hernández A, Gallardo-Pérez JC, Rodríguez-Enríquez S et. al. (2011). Modeling cancer glycolysis. Biochim Biophys Acta 1807:755–767 (doi) Cite error: Invalid
<ref>
tag; name "Hernandez2011" defined multiple times with different content Cite error: Invalid<ref>
tag; name "Hernandez2011" defined multiple times with different content Cite error: Invalid<ref>
tag; name "Hernandez2011" defined multiple times with different content Cite error: Invalid<ref>
tag; name "Hernandez2011" defined multiple times with different content - ↑ L.J. Reitzer, B.M. Wice, D. Kennell (1980), The pentose cycle, J. Biol. Chem. 255 5616–5626
- ↑ Marin-Hernandez, A., Gallardo-Perez, J. C., Ralph, S. J., Rodriguez-Enriquez, S. & Moreno-Sanchez, R. (2009), HIF-1α modulates energy metabolism in cancer cells by inducing over-expression of specific glycolytic isoforms. Mini-Rev. Med. Chem. 9, 1084–1101