Team:NYMU-Taipei/ymim2
From 2012.igem.org
Enzyme
Substrate
Kcat (min-1)
Km(mM)
Organism
Reference
Nitrate Reductase (Nap)
Nitrate
3480
0.112
Paracoccus pantotrophus
(1)
Nitrite Reductase (Nir)
Nitrite
480
0.053
Pseudomonas aeruginosa
(2)
Nitric Oxide Reductase (Nor)
Nitric Oxide
12660
0.06
Fusarium oxysporum
(3)
Nitrous Oxide Reductase (Nos)
Nitrous Oxide
16800
0.0056
Paracoccus denitrificans
(4)
Enzyme
Substrate
Vmax (mM /min-1)
Km(mM)
Organism
Reference
Nitrate Reductase (Nap)
Nitrate
27.885
0.47
Escherichia coli
(5)
Nitrite Reductase (Nfr)
Nitrite
46.14
0.022
Escherichia coli
(6)
Nitrite Reductase (Nir)
Nitrite
0.465
0.4
Escherichia coli
(7)
Parameter
Description
Value
Units
Reference
Copy Number in E.coli
300
Copy Number per Cell
Part Registry
Ptrc Promoter Strength
0.00003156
Polymerase per min
(10)(11)(12)
Degradation Rate of mRNA in E.coli
0.102
min-1
(8)
Degradation Rate of Enzyme in E.coli
0.0348
min-1
(8)
Translation rate in E.coli
720~1260
Amino Acids/min
(9)
Avogadaros' Number
6.02*
mmole-1
N/A
Cell Volume of E.coli
6.5*
liter
(18)
Translation rate of Nap
0.763
Number of mRNA/min
Estimated
Translation rate of Nir
0.96
Number of mRNA/min
Estimated
Translation rate of Nor
1.668
Number of mRNA/min
Estimated
Translation rate of Nos
1.602
Number of mRNA/min
Estimated
Parameter
Description
Value
Units
Reference
Copy Number in E.coli
300
Copy Number per Cell
Part Registry
Ptrc Promoter Strength
0.00003156
Polymerase per min
(8)(9)(10)
Degradation Rate of mRNA in E.coli
0.102
min-1
(11)
Degradation Rate of Enzyme in E.coli
0.0348
min-1
(11)
Translation rate in E.coli
720~1260
Amino Acids/min
(12)
Avogadaros' Number
6.02*
mmole-1
N/A
Cell Volume of E.coli
6.5*
liter
(13)
Translation rate of Nap
0.763
Number of mRNA/min
Estimated
Translation rate of Nir
0.96
Number of mRNA/min
Estimated
Translation rate of Nor
1.668
Number of mRNA/min
Estimated
Translation rate of Nos
1.602
Number of mRNA/min
Estimated
Reference
[1]Andrew J. GATES, David J. RICHARDSON, Julea N. BUTT(2008) Voltammetric characterization of the aerobic energy-dissipating nitrate reductase of Paracoccus pantotrophus : exploring the activity of a redox-balancing enzyme as a f unction of electrochemical potential. Biochem. J. (2008) 409, 159–168
[2]Serena Rinaldo, Francesca Cutruzzolà(2007) Nitrite Reductases in Denitrification. Biology of the Nitrogen Cycle 37-55
[3]Naoki Toritsuka, Hirofumi Shoun, Udai P. Singh, Sam-Yong Park , Tetsutaro Iizuka, Yoshitsugu Shiro(1997) Functional and structural comparison of nitric oxide reductases from denitrifying fungi Cylindrocarpon tonkinense and Fusarium oxysporum. Biochimica et Biophysica Acta 1338 1997 93–99
[4]Stuart W. Snyder, Thomas C. Hollocher(1987) Purification and some characteristics of nitrous oxide reductase from Paracoccus denitrificans. The Journal of Biology Chemistry VOl. 262, No.14. Issue of May 15. , pp. 6515-6525
[5] Robert A. LAZZARINI, Daniel E. Atkinson(1961) A Triphosphopyridine Nucleotide-specific Nitrite Reductase from Escherichia coli. The Journal of Biology Chemistry VOl. 236, No.12. December
[6] Michael W. W. AdamsS, Leonard E. Mortenson(1982) The Effect of Cyanide and Ferricyanide on the Activity of the Dissimilatory Nitrate Reductase of Escherichia coli. The Journal of Biology Chemistry VOl. 257, No.4. Issue of February 25, pp. 1791-1799
[7] Lewis M. Siegel, David C. Rueger, Michael J. Barber, Rick J. Krueger(1982) Escherichia coli Sulfite Reductase Hemoprotein Subuni. The Journal of Biology Chemistry VOl. 257, No.11. Issue of June 10, pp. 6343-6350
[8] Hsin-Ho Huang, Daniel Camsund, Peter Lindblad and Thorsten Heidorn(2010) Design and characterization of molecular tools for a Synthetic Biology approach towards developing cyanobacterial biotechnology. Nucleic Acids Research, Vol. 38, No. 8 2577–2593
[9] Michael Brunner, Hermann Bujard(1987) Promoter recognition and promoter strength in the Escherichia coli system. The EMBO Journal vol.6 no.10 pp.3139-3144
[10]Thomas A . Clarke , Paul C. Mills, Susie R. Poock,bJulea N. Butt, Myles R. Cheesman, Jeffrey A. Cole, Jay C. D. Hinton, Andrew M. Hemmings, Gemma Kemp, Christopher A . G . So¨derberg, Stephen Spiro, Jessica Van Wonderen, David J. Richardson(2008)Escherichia coli Cytochrome c Nitrite Reductase NrfA. Methods in Enzymology, Vol. 437 pp.64-77
[11] Kmalendu Nath, Arthur L. Koch(1971) Protein Degradation in Escherichia coli. The Journal of Biology Chemistry VOl. 246, No.22. Issue of November 25, pp. 6956-6967
[12]Thomas A . Clarke , Paul C. Mills, Susie R. Poock,bJulea N. Butt, Myles R. Cheesman, Jeffrey A. Cole, Jay C. D. Hinton, Andrew M. Hemmings, Gemma Kemp, Christopher A . G . So¨derberg, Stephen Spiro, Jessica Van Wonderen, David J. Richardson(2008)Escherichia coli Cytochrome c Nitrite Reductase NrfA. Methods in Enzymology, Vol. 437 pp.64-77
[13] Cell Volume Increase in Escherichia coli after Shifts to Richer Media, H. E. KUBITSCHEK ,Biological and Medical Research Division, Argonne National Laboratory,9700 South Cass Avenue, Argonne, Illinois 60439