Difference between revisions of "Part:BBa K811005"

 
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<partinfo>BBa_K811005 short</partinfo>
 
<partinfo>BBa_K811005 short</partinfo>
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See BBa_K811003 for details. INPNC with a MCS on C terminus with intervening GS linker domain for surface display of large proteins.  
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See BBa_K811003 for details. INPNC with 5' BamHI and 3' PstI cloning sites on the C terminus with intervening GS linker domain.  This construct can be used for the surface display of large proteins by ligating your gene of interest between the BamHI and PstI cut sites. To design a forward PCR primer compatible with this biobrick, please use the following attachment as a 5' overhang: AGGCGGATCCGGT-GENE.  This will include the BamHI cut site and will also ensure that your insert is in-frame with the INPNC-GSlinker so that it will properly be displayed on the surface.
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K811005 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K811005 SequenceAndFeatures</partinfo>
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===Usage and Biology===
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Ice nucleation protein (INP) is a protein found in ''Xanthomonas campestris'' pc. ''campestris'' BCRC 12846. It functions as, as its namesake suggests, causing ice nucleation and formation. However, recent studies have utilized INP for its surface display properties. In nature, the protein is anchored in the membrane through a glycosylphosphatidylinositol (GPI) anchor, a relatively rare occurance in prokaryotes.
  
 +
The INP protein is composed of a N-terminal region that appears to interact with the phospholipid membrane, a C-terminus hydrophillic region that is exposed to the outside membrane, as well as a central 8, 16, or 48 amino acid motif that is responsible for INP's ice nucleation properties. However, this central amino acid motif is not necessary for INP's surface display properties. Therefore, scientists truncated the proteamin, retaining only the N (179 aa) and C termini (49 aa) to produce INPNC.
  
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This truncated protein retains INP's membrane display abilities, and also contains a GS amino acid linker followed by a site containing multiple restriction sites for the easy ligation of additional DNA for INPNC fusion experiments and surface display of desired proteins.
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=== Characterization ===
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<html>
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Please see <a href="https://parts.igem.org/Part:BBa_K811003"> BBa_K811003</a> and <a href="https://parts.igem.org/Part:BBa_K811004"> BBa_K811004 </a> for full characterization.
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</html>
 
<!-- Uncomment this to enable Functional Parameter display  
 
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===Functional Parameters===
 
===Functional Parameters===
 
<partinfo>BBa_K811005 parameters</partinfo>
 
<partinfo>BBa_K811005 parameters</partinfo>
 
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==<big>''' CONTRIBUTION '''</big>==
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Tomoki Uchino from ''' [http://2016.igem.org/Team:Kyoto iGEM16_Kyoto] ''' <big>improved</big> and <big>further characterized</big> functionality of this part.<br>
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Please see <big>[https://parts.igem.org/Part:BBa_K1933001 BBa_K1933001]</big>, <big>[https://parts.igem.org/Part:BBa_K1933200 BBa_K1933200]</big>, and our [http://2016.igem.org/Team:Kyoto/Description project] for more details.
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===Confirmation of functionality of BBa_K811005===
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We used a modified form of BBa_K811005 in Kyoto 2016’s [http://2016.igem.org/Team:Kyoto/Description project] and
 +
added further characterization to this part.
 +
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First, we constructed INPNC-His-scFv encoding plasmid.
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scFv we used as a passenger protein to this surface expression domain was anti-Norovirus scFv. It specifically binds to Norovirus(NoV).
 +
We transformed it into <i>E. coli</i> strain DH5α to examine the physical interaction between the transformants and NoV-like particles (NoVLPs, the capsid proteins of norovirus).
 +
By scanning electron microscopy, we clearly observed NoVLPs bound on the surface of INPNC-His-scFv expressing <i>E. coli</i> cells.
 +
This, along with other results in our project show that a protein of interest can be expressed on the surface of <i>E. coli</i> by this INPNC module to capture target molecule(s). This visual demonstration on the function of this parts is shown in our [http://2016.igem.org/Team:Kyoto/Description project].
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===Addition of His-tag to BBa_K811005===
 +
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[http://2016.igem.org/Team:Kyoto/Description Kyoto 2016] added His-tag to BBa_K811005 and obtained a new parts [https://parts.igem.org/Part:BBa_K1933001 BBa_ K1933001].
 +
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This addition introduces two new functions to the fusion protein:
 +
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1) We can use anti-His tag antibody to detect their surface expression regardless of passenger protein placed downstream. <br>
 +
We confirmed this with detections of the INPNC-His-(passenger protein) by Western blotting using anti-His tag antibody.
 +
 +
2) INPNC-His-(passenger protein) can be purified using nickel columns.<br>
 +
Taking advantage of this His-tag system, we can isolate our fusion proteins from the insoluble membrane fractions of E. coli cells, after solubilizing with 7M guanidine-HCl.
 +
This would allow fusion protein detection even if the protein’s expression levels are low, further strengthening the first function. <br>
 +
We tested and confirmed this function.
 +
See our [http://2016.igem.org/Team:Kyoto/Description project] for more details.

Latest revision as of 17:44, 19 October 2016

INPNC-MCS

See BBa_K811003 for details. INPNC with 5' BamHI and 3' PstI cloning sites on the C terminus with intervening GS linker domain. This construct can be used for the surface display of large proteins by ligating your gene of interest between the BamHI and PstI cut sites. To design a forward PCR primer compatible with this biobrick, please use the following attachment as a 5' overhang: AGGCGGATCCGGT-GENE. This will include the BamHI cut site and will also ensure that your insert is in-frame with the INPNC-GSlinker so that it will properly be displayed on the surface.


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 952
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 72
    Illegal NgoMIV site found at 405
    Illegal AgeI site found at 823
  • 1000
    COMPATIBLE WITH RFC[1000]

Usage and Biology

Ice nucleation protein (INP) is a protein found in Xanthomonas campestris pc. campestris BCRC 12846. It functions as, as its namesake suggests, causing ice nucleation and formation. However, recent studies have utilized INP for its surface display properties. In nature, the protein is anchored in the membrane through a glycosylphosphatidylinositol (GPI) anchor, a relatively rare occurance in prokaryotes.

The INP protein is composed of a N-terminal region that appears to interact with the phospholipid membrane, a C-terminus hydrophillic region that is exposed to the outside membrane, as well as a central 8, 16, or 48 amino acid motif that is responsible for INP's ice nucleation properties. However, this central amino acid motif is not necessary for INP's surface display properties. Therefore, scientists truncated the proteamin, retaining only the N (179 aa) and C termini (49 aa) to produce INPNC.

This truncated protein retains INP's membrane display abilities, and also contains a GS amino acid linker followed by a site containing multiple restriction sites for the easy ligation of additional DNA for INPNC fusion experiments and surface display of desired proteins.


Characterization

Please see BBa_K811003 and BBa_K811004 for full characterization.


CONTRIBUTION

Tomoki Uchino from [http://2016.igem.org/Team:Kyoto iGEM16_Kyoto] improved and further characterized functionality of this part.
Please see BBa_K1933001, BBa_K1933200, and our [http://2016.igem.org/Team:Kyoto/Description project] for more details.

Confirmation of functionality of BBa_K811005

We used a modified form of BBa_K811005 in Kyoto 2016’s [http://2016.igem.org/Team:Kyoto/Description project] and added further characterization to this part.

First, we constructed INPNC-His-scFv encoding plasmid. scFv we used as a passenger protein to this surface expression domain was anti-Norovirus scFv. It specifically binds to Norovirus(NoV). We transformed it into E. coli strain DH5α to examine the physical interaction between the transformants and NoV-like particles (NoVLPs, the capsid proteins of norovirus). By scanning electron microscopy, we clearly observed NoVLPs bound on the surface of INPNC-His-scFv expressing E. coli cells. This, along with other results in our project show that a protein of interest can be expressed on the surface of E. coli by this INPNC module to capture target molecule(s). This visual demonstration on the function of this parts is shown in our [http://2016.igem.org/Team:Kyoto/Description project].

Addition of His-tag to BBa_K811005

[http://2016.igem.org/Team:Kyoto/Description Kyoto 2016] added His-tag to BBa_K811005 and obtained a new parts BBa_ K1933001.

This addition introduces two new functions to the fusion protein:

1) We can use anti-His tag antibody to detect their surface expression regardless of passenger protein placed downstream.
We confirmed this with detections of the INPNC-His-(passenger protein) by Western blotting using anti-His tag antibody.

2) INPNC-His-(passenger protein) can be purified using nickel columns.
Taking advantage of this His-tag system, we can isolate our fusion proteins from the insoluble membrane fractions of E. coli cells, after solubilizing with 7M guanidine-HCl. This would allow fusion protein detection even if the protein’s expression levels are low, further strengthening the first function.
We tested and confirmed this function. See our [http://2016.igem.org/Team:Kyoto/Description project] for more details.