Difference between revisions of "Transformation of K6PGF1a to exK6PGF1a by PGT"

From ISMOC
Jump to: navigation, search
(Created page with " Return to overview Prostaglandin Transporter == Rate equation == File:R109.PN...")
 
(→‎Transport Parameters)
Line 8: Line 8:
  
 
== Transport Parameters ==
 
== Transport Parameters ==
−
 
+
===K<sub>ms</sub>===
 
{|class="wikitable sortable"  
 
{|class="wikitable sortable"  
−
|+  style="text-align: left;" | Michaelis-Menten Constants
+
|+  style="text-align: left;" | Literature values
 
|-
 
|-
 
! Value
 
! Value
Line 136: Line 136:
 
|}
 
|}
  
 +
{| class="wikitable"
 +
|+  style="text-align: left;" | Description of the PGT Kms distribution
 +
! Mode (mM) !! Confidence Interval  !! Location parameter (µ) !! Scale parameter (σ)
 +
|-
 +
| 1.10E-03 || 9.42E+01 || -4.67E+00 || 1.45E+00
 +
|}
 +
 +
[[Image:141.jpg|none|thumb|500px|The estimated probability distribution for PGT Kms. The value and weight of the literature values used to define the distribution are indicated by an orange dashed line. The x axis is plotted on a log-scale.  ]]
  
 +
===k<sub>cat</sub>===
 
No data available on the turnover of PGT/ an organic molecule transporter therefore based upon estimates made by http://book.bionumbers.org/what-are-the-rates-of-membrane-transporters/
 
No data available on the turnover of PGT/ an organic molecule transporter therefore based upon estimates made by http://book.bionumbers.org/what-are-the-rates-of-membrane-transporters/
 
{|class="wikitable sortable"  
 
{|class="wikitable sortable"  
−
|+  style="text-align: left;" | Turnover Number
+
|+  style="text-align: left;" | Literature values
 
|-
 
|-
 
! Value
 
! Value
Line 170: Line 179:
 
|}
 
|}
  
 +
{| class="wikitable"
 +
|+  style="text-align: left;" | Description of the PGT kcat distribution
 +
! Mode (min-1) !! Confidence Interval  !! Location parameter (µ) !! Scale parameter (σ)
 +
|-
 +
| 1.33E+00 || 7.30E+00 || 9.20E-01 || 8.00E-01
 +
|}
 +
 +
[[Image:132.jpg|none|thumb|500px|The estimated probability distribution for PGT kcat. The value and weight of the literature values used to define the distribution are indicated by an orange dashed line. The x axis is plotted on a log-scale.  ]]
 +
 +
=== Transporter concentration ===
 
{|class="wikitable sortable"  
 
{|class="wikitable sortable"  
−
|+  style="text-align: left;" | Abundance
+
|+  style="text-align: left;" | Literature values
 
|-
 
|-
 
! Value
 
! Value
Line 208: Line 227:
 
|}
 
|}
  
 +
{| class="wikitable"
 +
|+  style="text-align: left;" | Description of the PGT concentration distribution
 +
! Mode (mM) !! Confidence Interval  !! Location parameter (µ) !! Scale parameter (σ)
 +
|-
 +
| 1.73E+01 || 4.72E+00 || 3.90E+00 || 1.02E+00
 +
|}
 +
 +
[[Image:165.jpg|none|thumb|500px|The estimated probability distribution for PGT concentration. The value and weight of the literature values used to define the distribution are indicated by an orange dashed line. The x axis is plotted on a log-scale.  ]]
  
 
== References ==
 
== References ==
 
<references/>
 
<references/>

Revision as of 14:31, 16 May 2019

Return to overview

Prostaglandin Transporter


Rate equation

R109.PNG

Transport Parameters

Kms

Literature values
Value Units Species Notes Reference
0.0054 mM Human Eye Vector: HEK-OATP2A1 or HEK-OATP2B1 and the respective vector controls

Substrate: Latanoprost, a prostaglandin F2a analogue pH: 7.5 Temp: 37 °C

[1]
0.000331 ± 0.000131 mM Transfected Human embryonic kidney cells (HEK293) Substrate: PGE2

pH: unknown Temp: 37 °C

[2]
0.007202 ± 0.000595 mM Transfected Human embryonic kidney cells (HEK293) Substrate: PGE3

pH: unknown Temp: 37 °C

[2]
0.000376 ± 3.4e-5 mM PGT-expressing Madin-Darby Canine Kidney Epithelial Cells (MDCK) cells Substrate: PGH2

pH: unknown Temp: unknown

[3]
9.40E-05 mM Human Substrate: PGE2

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[4]
0.000423 mM Human Substrate: TXB2

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[4]
0.007569 mM Human Substrate: 6-Keto-PGF1a

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[4]
4.87E-05 mM Human Substrate: PGE2

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[5]
5.02E-05 mM Human Substrate: PGF2a

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[5]
0.005 mM Human Substrate: 15-Keto-PGE2

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[5]
0.005 mM Human Substrate: 13,14-Dihydo-15-Keto-PGE2

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[5]
3.82E-05 mM Human Substrate: PGH2

Species: Human Vector: HeLa Cell Line pH: 7 Temperature: 27

[5]
Description of the PGT Kms distribution
Mode (mM) Confidence Interval Location parameter (µ) Scale parameter (σ)
1.10E-03 9.42E+01 -4.67E+00 1.45E+00
The estimated probability distribution for PGT Kms. The value and weight of the literature values used to define the distribution are indicated by an orange dashed line. The x axis is plotted on a log-scale.

kcat

No data available on the turnover of PGT/ an organic molecule transporter therefore based upon estimates made by http://book.bionumbers.org/what-are-the-rates-of-membrane-transporters/

Literature values
Value Units Transporter Notes Reference
3.5 min-1 Glucose transporter ptsI Organism: Bacteria Escherichia coli

Back of the envelope calculation by BioNumbers: http://bionumbers.hms.harvard.edu/bionumber.aspx?&id=102931

[6]
0.33 - 0.83 min-1 Rate of transport of H+/Lactose transporter Organism: Bacteria Escherichia coli

Back of the envelop calculation on bionumbers http://bionumbers.hms.harvard.edu/bionumber.aspx?&id=103159

[7]
3.28 min-1 Catalytic Rate of transporter HXT7 Organism: Budding yeast Saccharomyces cerevisiae

Back of the envelope calculation http://bionumbers.hms.harvard.edu/bionumber.aspx?&id=101737

[8]
Description of the PGT kcat distribution
Mode (min-1) Confidence Interval Location parameter (µ) Scale parameter (σ)
1.33E+00 7.30E+00 9.20E-01 8.00E-01
The estimated probability distribution for PGT kcat. The value and weight of the literature values used to define the distribution are indicated by an orange dashed line. The x axis is plotted on a log-scale.

Transporter concentration

Literature values
Value Units Species Notes Reference
125 ppm Human Vector:Lung

Enzyme: SLCO2A1 pH: 7.5 Temperature: 37 °C

[9]
17.4 ppm Human Expression Vector: Esophagus

Enzyme: SLCO2A1 pH: 7.5 Temperature: 37 °C

[10]
2.82 ppm Human Vector:Gut

Enzyme: SLCO2A1 pH: 7.5 Temperature: 37 °C

[9]
Description of the PGT concentration distribution
Mode (mM) Confidence Interval Location parameter (µ) Scale parameter (σ)
1.73E+01 4.72E+00 3.90E+00 1.02E+00
The estimated probability distribution for PGT concentration. The value and weight of the literature values used to define the distribution are indicated by an orange dashed line. The x axis is plotted on a log-scale.

References

  1. ↑ M. Kraft The prostaglandin transporter OATP2A1 is expressed in human ocular tissues and transports the antiglaucoma prostanoid latanoprost. Invest Ophthalmol Vis Sci. 2010 May;51(5):2504-11. doi: 10.1167/iovs.09-4290. Epub 2009 Dec 17.
  2. ↑ 2.0 2.1 Gose T. Prostaglandin transporter (OATP2A1/SLCO2A1) contributes to local disposition of eicosapentaenoic acid-derived PGE3. Prostaglandins Other Lipid Mediat. 2016 Jan;122:10-7. doi: 10.1016/j.prostaglandins.2015.12.003. Epub 2015 Dec 10.
  3. ↑ Chi Y. The prostaglandin transporter PGT transports PGH2 Biochemical and Biophysical Research Communications, Volume 395, Issue 2, 30 April 2010, Pages 168–172
  4. ↑ 4.0 4.1 4.2 [http://science.sciencemag.org/content/sci/268/5212/866.full.pdf Kanai N. Identification and Characterization of a Prostaglandin Transporter Science 12 May 1995:Vol. 268, Issue 5212, pp. 866-869, DOI: 10.1126/science.7754369]
  5. ↑ 5.0 5.1 5.2 5.3 5.4 Shigekazu I. Structural Determinants of Substrates for the Prostaglandin Transporter PGT Molecular Pharmacology October 1996, 50 (4) 736-742; DOI: https://doi.org/10.1124/mol.50.4.736
  6. ↑ Waygood EB Enzyme I of the phosphoenolpyruvate: sugar phosphotransferase system of Escherichia coli. Purification to homogeneity and some properties.Can J Biochem. 1980 Jan;58(1):40-8.
  7. ↑ Naftalin R. J. ELactose permease H+-lactose symporter: mechanical switch or Brownian ratchet?Biophys J. 2007 May 15;92(10):3474-91. Epub 2007 Feb 26.
  8. ↑ Ye L. Expression and activity of the Hxt7 high-affinity hexose transporter of Saccharomyces cerevisiaeYeast. 2001 Sep 30;18(13):1257-67.
  9. ↑ 9.0 9.1 M. Kim A draft map of the human proteome Nature, 2014 509, 575–581
  10. ↑ M. Wilhelm Mass-spectrometry-based draft of the human proteome Nature, 2014 509, 582–587
Retrieved from ‘http://www.systemsbiology.ls.manchester.ac.uk/wiki/index.php?title=Transformation_of_K6PGF1a_to_exK6PGF1a_by_PGT&oldid=6903’