Difference between revisions of "Part:BBa K1031410"

(→‎Characterization of Biosensor)
Line 7: Line 7:
  
  
−
HcaR is a 32,838 Da (296 amino acids) protein, which belongs to LysR family. Its’ N-terminal domain functions in DNA binding via a helix-turn-helix motif, while C-terminal domain functions in multimerization. As an activator, HcaR activates the expression of hca cluster when exposed to ligands. It detects limited range of ligands, including 3-phenylpropionic acid (PPA) and cinnamic acid (CnA) <html><sup><a href="#REF">[1]</a></sup></html>. Another gene cluster mhp locates downstream hca cluster.
+
HcaR is a 32,838 Da (296 amino acids) protein, which belongs to LysR family. Its’N-terminal domain functions in DNA binding via a helix-turn-helix motif, while C-terminal domain functions in multimerization. As an activator, HcaR activates the expression of hca cluster when exposed to ligands. It detects limited profile of ligands, including 3-phenylpropionic acid (PPA) and cinnamic acid (CnA) <html><sup><a href="#REF">[1]</a></sup></html>. Another gene cluster mhp locates downstream hca cluster.
−
hca and mhp clusters are involved in the catabolism of PPA and CnA in E. coli '''(Fig.1)'''. The enzymes encoded by hca cluster degrade PPA and CnA to 2,3-DHPPA and 2,3-DHCnA respectively, which serve as the substrates of the mhp cluster. The enzymes in mhp cluster function in the cleavage of aromatic ring.
+
hca and mhp clusters are involved in the catabolism of PPA and CnA in ''E.coli'' '''(Fig.1)'''. The enzymes encoded by hca cluster degrade PPA and CnA to 2,3-DHPPA and 2,3-DHCnA respectively, which serve as the substrates of the mhp cluster. The enzymes in mhp cluster function in the cleavage of aromatic ring.
  
 
<html>
 
<html>
Line 17: Line 17:
  
  
−
Compared with the sole 2,3-DHPPA, the special induction effect of PPA and 2,3-DHPPA is obtained, although PPA don’t behave as ligand alone. Based on the result and the observation of different binding site of PPA with MhpR, it is deduced that PPA and 2,3-DHPPA have synergistic effect to the activation of MhpR expression <html><sup><a href="#REF">[2]</a></sup></html>. (That is to say, PPA enhances the activation effect as a cooperator of 2,3-DHPPA instead of a ligand.) The same effect is observed in 3-HPPA along with PPA.  
+
Compared with the sole 2,3-DHPPA, the special induction effect of PPA and 2,3-DHPPA is obtained, although PPA doesn't behave as inducer when alone. Based on the result and the observation of different binding site of PPA with MhpR, it is deduced that PPA and 2,3-DHPPA have synergistic effect to the activation of MhpR expression <html><sup><a href="#REF">[2]</a></sup></html>. (That is to say, PPA enhances the activation effect as a cooperator of 2,3-DHPPA instead of a ligand.) The same effect is observed in 3-HPPA along with PPA.  
  
  
Line 35: Line 35:
  
  
−
Ph/HcaR biosensor circuit is constructed. The coding sequence of HcaR was obtained from the genome of <i>E. coli</i> K12 via PCR. A Pc library of constitutive promoters are constructed to fine-tune the biosensor, which consists of Pc promoters at different intensity, including BBa_J23113, J23109, J23114 and J23106 '''(Fig 2).'''  
+
''Ph''/HcaR biosensor circuit is constructed. The coding sequence of HcaR was obtained from the genome of <i>E. coli</i> K12 via PCR. A ''Pc'' library of constitutive promoters at different intensities are constructed to fine-tune the biosensor, including BBa_J23113, J23109, J23114 and J23106 ('''Fig 2''').
  
  
Line 45: Line 45:
  
  
−
When tested with 78 aromatic compounds, ON/OFF test via microplate reader showed that HcaR worked as a specific sensor to PPA '''(Fig.3).'''
+
When tested with 78 aromatic compounds, ON/OFF test via microplate reader showed that HcaR worked as a specific sensor to PPA ('''Fig.3''').
  
 
<html>
 
<html>
Line 51: Line 51:
 
</html>
 
</html>
  
−
'''Fig.4'''  Dose-response curve for HcaR with constitutive promoter Pc (J23106)
+
'''Fig.4'''  Dose-response curve for HcaR with constitutive promoter'' Pc'' (J23106)
 +
 
  
 
== Reference ==
 
== Reference ==

Revision as of 15:22, 26 September 2013

HcaR-Terminator


Introduction

HcaR is a 32,838 Da (296 amino acids) protein, which belongs to LysR family. Its’N-terminal domain functions in DNA binding via a helix-turn-helix motif, while C-terminal domain functions in multimerization. As an activator, HcaR activates the expression of hca cluster when exposed to ligands. It detects limited profile of ligands, including 3-phenylpropionic acid (PPA) and cinnamic acid (CnA) [1]. Another gene cluster mhp locates downstream hca cluster. hca and mhp clusters are involved in the catabolism of PPA and CnA in E.coli (Fig.1). The enzymes encoded by hca cluster degrade PPA and CnA to 2,3-DHPPA and 2,3-DHCnA respectively, which serve as the substrates of the mhp cluster. The enzymes in mhp cluster function in the cleavage of aromatic ring.

Fig.1 The degradation pathway of PPA and CnA.


Compared with the sole 2,3-DHPPA, the special induction effect of PPA and 2,3-DHPPA is obtained, although PPA doesn't behave as inducer when alone. Based on the result and the observation of different binding site of PPA with MhpR, it is deduced that PPA and 2,3-DHPPA have synergistic effect to the activation of MhpR expression [2]. (That is to say, PPA enhances the activation effect as a cooperator of 2,3-DHPPA instead of a ligand.) The same effect is observed in 3-HPPA along with PPA.


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 849
    Illegal AgeI site found at 522
  • 1000
    COMPATIBLE WITH RFC[1000]



Characterization of Biosensor

Ph/HcaR biosensor circuit is constructed. The coding sequence of HcaR was obtained from the genome of E. coli K12 via PCR. A Pc library of constitutive promoters at different intensities are constructed to fine-tune the biosensor, including BBa_J23113, J23109, J23114 and J23106 (Fig 2).


Fig.2 Construction of biosensor HcaR circuit.


When tested with 78 aromatic compounds, ON/OFF test via microplate reader showed that HcaR worked as a specific sensor to PPA (Fig.3).

Fig.4 Dose-response curve for HcaR with constitutive promoter Pc (J23106)


Reference

[1] Díaz, E., Ferrández, A., & García, J. L. (1998). Characterization of the hca Cluster Encoding the Dioxygenolytic Pathway for Initial Catabolism of 3-Phenylpropionic Acid in Escherichia coliK-12. Journal of bacteriology, 180(11), 2915-2923.

[2] Manso, I., Torres, B., Andreu, J. M., Menéndez, M., Rivas, G., Alfonso, C., ... & Galán, B. (2009). 3-Hydroxyphenylpropionate and phenylpropionate are synergistic activators of the MhpR transcriptional regulator from Escherichia coli. Journal of Biological Chemistry, 284(32), 21218-21228.