Difference between revisions of "Part:BBa K3349008"

 
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The PelC Pectin Lyase is originally from <i>Paenabacillus amylolyticus</i> .
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The PelC Pectin Lyase is originally from <i>Paenabacillus amylolyticus</i> .This particular pectin lyase is more specific to methylated pectin or homogalacturonan substrates rather than polygalacturonic acid [1]. This protein also works with both PelB(BBa_K3349001) and Pnl(BBa_K3349001) in this organism to effectively break down pectin. PelC has an optimal activity at 55°C and a pH of 10. The Km in in terms of 80% methylated substrates is 0.41 +/-0.06mg/ml. Calcium is a cofactor for this protein and is therefore necessary within the buffer conditions [1].
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For purification purposes, this gene has a C-terminal hexa-histidine tag. For more information on our design and use please see our webpage https://2020.igem.org/Team:Lethbridge_HS.
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In the beginning of our project we decided to do homology modelling of our pectin lyase enzymes in order to inform our thermostability modelling.
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<img src= "https://2020.igem.org/wiki/images/2/22/T--Lethbridge_HS--PelCmodelling.png" alt="pnl modelling" style="width:700px;height:300px;">
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</html>
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<b>Figure 1:</b> Homology modelling of PelC from <i>P. amylolyticus </i>. The protein structure was done using iTASSER [2] and SWISS-Model [3]. The two structures were then aligned and compared. A more in depth analysis can be found on our webpage.
  
 
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Revision as of 22:36, 1 October 2020


Pectin Lyase PelC

The PelC Pectin Lyase is originally from Paenabacillus amylolyticus .This particular pectin lyase is more specific to methylated pectin or homogalacturonan substrates rather than polygalacturonic acid [1]. This protein also works with both PelB(BBa_K3349001) and Pnl(BBa_K3349001) in this organism to effectively break down pectin. PelC has an optimal activity at 55°C and a pH of 10. The Km in in terms of 80% methylated substrates is 0.41 +/-0.06mg/ml. Calcium is a cofactor for this protein and is therefore necessary within the buffer conditions [1].

For purification purposes, this gene has a C-terminal hexa-histidine tag. For more information on our design and use please see our webpage https://2020.igem.org/Team:Lethbridge_HS.


In the beginning of our project we decided to do homology modelling of our pectin lyase enzymes in order to inform our thermostability modelling.

pnl modelling

Figure 1: Homology modelling of PelC from P. amylolyticus . The protein structure was done using iTASSER [2] and SWISS-Model [3]. The two structures were then aligned and compared. A more in depth analysis can be found on our webpage.

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 AgeI site found at 901
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 287