Difference between revisions of "Part:BBa K2710003"

Revision as of 12:26, 17 October 2018 (view source) Emilywatson (Talk | contribs) ← Older edit		Latest revision as of 16:17, 17 October 2018 (view source) Brianee (Talk | contribs)
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−	<p> <b>Snoop Catcher/Tag</b> info.</p>	+	<p> <b>The SnoopCatcher</b> and SnoopTag system was derived from the adhesin RrgA from <i>Streptococcus pneumoniae</i><sup>2</sup>. Similar in function to the SpyCatcher/Tag system<sup>3</sup>, fusion of the SnoopCatcher and SnoopTag to different proteins enables their spontaneous covalent conjugation within minutes. The Spy and Snoop attachment systems are orthogonal, as SnoopTag/SnoopCatcher does not interact with SpyTag/SpyCatcher<sup>2</sup>.</p>
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−	<p>A <b>6x HisTag</b> (six consecutive histidine residues, also known as a hexahistidine tag) was added to IaaH to enable purification, utilising the affinity of the HisTag for nickel ions for Immobilised Metal Affinity Chromatography purification<sup>5</sup>.</p>	+	<p>A <b>6x HisTag</b> (six consecutive histidine residues, also known as a hexahistidine tag) was added to IaaH to enable purification, utilising the affinity of the HisTag for nickel ions for Immobilised Metal Affinity Chromatography purification<sup>4</sup>.</p>
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	<partinfo>BBa_K2710003 SequenceAndFeatures</partinfo>		<partinfo>BBa_K2710003 SequenceAndFeatures</partinfo>
	<p> The part was validated by sequence verification and a diagnostic gel. </p>		<p> The part was validated by sequence verification and a diagnostic gel. </p>
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	<h3>Characterisation</h3>		<h3>Characterisation</h3>
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	<p class="figure-legend fig2-leg"><b>Figure 2:</b> SDS-PAGE analysis of IMAC purification of 6xHis bPFD-SnoopCatcher (BBa_K2710003). SeeBlue Plus 2 Pre-stained Protein Standard (Invitrogen) was used as the molecular weight standard. Lanes are labelled as flow through (FT), wash (W) and elutions (E1, E2, E3).  Successful purification of 6xHis bPFD-SnoopCatcher confirmed (MW: 28 kDa).</p>		<p class="figure-legend fig2-leg"><b>Figure 2:</b> SDS-PAGE analysis of IMAC purification of 6xHis bPFD-SnoopCatcher (BBa_K2710003). SeeBlue Plus 2 Pre-stained Protein Standard (Invitrogen) was used as the molecular weight standard. Lanes are labelled as flow through (FT), wash (W) and elutions (E1, E2, E3).  Successful purification of 6xHis bPFD-SnoopCatcher confirmed (MW: 28 kDa).</p>
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	<p><b>SEC</b></p>		<p><b>SEC</b></p>
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	https://static.igem.org/mediawiki/2018/thumb/5/55/T--UNSW_Australia--assembly1.jpeg/800px-T--UNSW_Australia--assembly1.jpeg		https://static.igem.org/mediawiki/2018/thumb/5/55/T--UNSW_Australia--assembly1.jpeg/800px-T--UNSW_Australia--assembly1.jpeg
−	<p class="figure-legend fig3-leg"><b>Figure 3:</b>Overlayed SEC chromatograms of aPFD (pink), bPFD (brown) and a 1:2 molar ratio mixture of aPFD and bFPD (orange).</p>	+	<p class="figure-legend fig3-leg"><b>Figure 3:</b> Overlayed SEC chromatograms of aPFD (pink), bPFD (brown) and a 1:2 molar ratio mixture of aPFD and bFPD (orange).</p>
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	<p>SEC chromatograms of aPFD, bPFD and a 1:2 molar mixture of aPFD and bPFD were overlayed, revealing the formation of larger molecular weight structures in the mixture of aPFD and bFPD. The peak was not of a Gaussian distribution, suggesting that the larger structures were not monodisperse, and that several oligomers exist. Four peaks were identified as potential oligomeric structures, with the largest peak eluting at 13.3 mL.</p>		<p>SEC chromatograms of aPFD, bPFD and a 1:2 molar mixture of aPFD and bPFD were overlayed, revealing the formation of larger molecular weight structures in the mixture of aPFD and bFPD. The peak was not of a Gaussian distribution, suggesting that the larger structures were not monodisperse, and that several oligomers exist. Four peaks were identified as potential oligomeric structures, with the largest peak eluting at 13.3 mL.</p>
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−	https://static.igem.org/mediawiki/2018/4/4f/T--UNSW_Australia--assembly2.jpeg	+	https://static.igem.org/mediawiki/2018/0/04/T--UNSW_Australia--sec_calibration_cutve.png
	<p class="figure-legend fig4-leg"><b>Figure 4:</b> SEC calibration curve obtained using molecular weight standards thyroglobulin (670 kDa), gamma-globulin (158 kDa), ovalbumin (44 kDa) and myoglobulin (17 kDa).</p>		<p class="figure-legend fig4-leg"><b>Figure 4:</b> SEC calibration curve obtained using molecular weight standards thyroglobulin (670 kDa), gamma-globulin (158 kDa), ovalbumin (44 kDa) and myoglobulin (17 kDa).</p>
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	<p class="figure-legend"><b>Table 1:</b> Predicted molecular weights of peaks from SEC using the SEC calibration curve.</p>		<p class="figure-legend"><b>Table 1:</b> Predicted molecular weights of peaks from SEC using the SEC calibration curve.</p>
−	<p><b>INSERT SCREENSHOT OF TABLE FROM PROTEIN ASSEMBLY PAGE</b></p>	+	https://static.igem.org/mediawiki/parts/thumb/d/dd/T--UNSW_Australia--biobricktable1.png/800px-T--UNSW_Australia--biobricktable1.png
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	<ol>		<ol>
	<li>Siegert, R., Leroux, M. R., Scheufler, C., Hartl, F. U. & Moarefi, I. Structure of the molecular chaperone prefoldin: unique interaction of multiple coiled coil tentacles with unfolded proteins. Cell 103, 621–32 (2000).</li>		<li>Siegert, R., Leroux, M. R., Scheufler, C., Hartl, F. U. & Moarefi, I. Structure of the molecular chaperone prefoldin: unique interaction of multiple coiled coil tentacles with unfolded proteins. Cell 103, 621–32 (2000).</li>
		+	<li>Veggiani, G. <em>et al.</em> Programmable polyproteams built using twin peptide superglues. <em>Proc. Natl. Acad. Sci.</em> <b>113</b>, 1202–1207 (2016).</li>
	<li>Zakeri, B. et al. Peptide tag forming a rapid covalent bond to a protein, through engineering a bacterial adhesin. Proc Natl Acad Sci U S A 109, E690-697, doi:10.1073/pnas.1115485109 (2012).</li>		<li>Zakeri, B. et al. Peptide tag forming a rapid covalent bond to a protein, through engineering a bacterial adhesin. Proc Natl Acad Sci U S A 109, E690-697, doi:10.1073/pnas.1115485109 (2012).</li>
−	<li>Domeradzka, N. E., Werten, M. W., Wolf, F. A. & de Vries, R. Protein cross-linking tools for the construction of nanomaterials. Curr Opin Biotechnol 39, 61-67, doi:10.1016/j.copbio.2016.01.003 (2016).</li>
−	<li>Reddington, S. C. & Howarth, M. Secrets of a covalent interaction for biomaterials and biotechnology: SpyTag and SpyCatcher. Curr Opin Chem Biol 29, 94-99, doi:10.1016/j.cbpa.2015.10.002 (2015).</li>
	<li>Hochuli, E., Dobeli, H. & Schacher, A. New metal chelate adsorbent selective for proteins and peptides containing neighbouring histidine residues. J Chromatogr 411, 177-184 (1987).</li>		<li>Hochuli, E., Dobeli, H. & Schacher, A. New metal chelate adsorbent selective for proteins and peptides containing neighbouring histidine residues. J Chromatogr 411, 177-184 (1987).</li>
	</ol>		</ol>
	</div>		</div>

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Latest revision as of 16:17, 17 October 2018

6xHis Beta Prefoldin with Snoop-Catcher

A HisTag and GSG linker was added to the N-terminus of the protein beta prefoldin. A SnoopCatcher and (GSG)x3 linker was added to the C-terminus.

Usage and Biology

Prefoldin is a molecular chaperone protein which assists in the correct folding of nascent proteins¹. Alpha prefoldin (aPFD) and beta prefoldin (bPFD) are two subclasses of prefoldin which oligomerise to form a heterohexameric structure consisting of two alpha subunits and four beta subunits¹(Figure 1). Alpha prefoldin (15.7 kDa) and beta prefoldin (13.8 kDa) derived from the thermophilic arcahea Methanobacterium thermoautotrophicum self assemble into an 87 kDa hexamer. The prefoldin hexamer is assembled through interactions between beta hairpins in each subunit, whereby the beta hairpins form two 8 stranded up and down beta barrels¹. Each subunit contains flexible alpha-helical coiled coils, 60 to 70 Å in length, which extend from the beta barrel platform¹. The hexamer is stable at high temperatures, with a Tm ≥ 70°C¹.

Figure 1: aPFD (red) and bPFD (pink) form hexamers. Image created using PDB ID: 1FXK²

The SnoopCatcher and SnoopTag system was derived from the adhesin RrgA from Streptococcus pneumoniae². Similar in function to the SpyCatcher/Tag system³, fusion of the SnoopCatcher and SnoopTag to different proteins enables their spontaneous covalent conjugation within minutes. The Spy and Snoop attachment systems are orthogonal, as SnoopTag/SnoopCatcher does not interact with SpyTag/SpyCatcher².

A 6x HisTag (six consecutive histidine residues, also known as a hexahistidine tag) was added to IaaH to enable purification, utilising the affinity of the HisTag for nickel ions for Immobilised Metal Affinity Chromatography purification⁴.

Sequence and Features

The part was validated by sequence verification and a diagnostic gel.

Characterisation

Protein Purification

BBa_K2710003 (encoding 6xHis bPFD-SnoopCatcher) was subcloned into the multiple cloning site of pET19b for expression in E. coli T7 Express (NEB) and purified by Immobilised Metal Affinity Chromatography (IMAC). The purification was analysed by SDS-PAGE (Figure 2). The 6xHis bPFD-SnoopCatcher was successfully purified as reflected by the clear bands seen at the expected molecular weight range (28 kDa) in the elution lanes.

Figure 2: SDS-PAGE analysis of IMAC purification of 6xHis bPFD-SnoopCatcher (BBa_K2710003). SeeBlue Plus 2 Pre-stained Protein Standard (Invitrogen) was used as the molecular weight standard. Lanes are labelled as flow through (FT), wash (W) and elutions (E1, E2, E3). Successful purification of 6xHis bPFD-SnoopCatcher confirmed (MW: 28 kDa).

SEC

Size Exclusion Chromatography (SEC) is an appropriate method for analysing the assembly of prefoldin hexamers as it retains the native structure of assemblies and can distinguish between molecules of varying size. SEC was used to demonstrate the formation of aPFD and bPFD hexamers, and to investigate of the monodispersity of the sample.

IMAC purified alpha prefoldin and beta prefoldin were mixed in a 1:2 molar ratio to a total volume of 1 mL at concentrations of 1 mg/mL in PBS pH 8 and incubated overnight at 4°C. Size Exclusion Chromatography was kindly performed by Ms Hélène Lebhar. Alpha prefoldin, beta prefoldin and the mixture were loaded onto a Superdex S200 Increase 10/300 GL column using an AKTA start, and separated by SEC. The chromatograms of the three runs were then overlayed for analysis, and compared to the molecular weight standards thyroglobulin (670 kDa), gamma-globulin (158 kDa), ovalbumin (44 kDa) and myoglobulin (17 kDa).

Figure 3: Overlayed SEC chromatograms of aPFD (pink), bPFD (brown) and a 1:2 molar ratio mixture of aPFD and bFPD (orange).

SEC chromatograms of aPFD, bPFD and a 1:2 molar mixture of aPFD and bPFD were overlayed, revealing the formation of larger molecular weight structures in the mixture of aPFD and bFPD. The peak was not of a Gaussian distribution, suggesting that the larger structures were not monodisperse, and that several oligomers exist. Four peaks were identified as potential oligomeric structures, with the largest peak eluting at 13.3 mL.

Figure 4: SEC calibration curve obtained using molecular weight standards thyroglobulin (670 kDa), gamma-globulin (158 kDa), ovalbumin (44 kDa) and myoglobulin (17 kDa).

The predicted molecular weight of the largest alpha beta peak is consistent with the size of a hexamer, but the peak does not appear to be monodispersed (Table 1). It appears that largest structures are present.

Table 1: Predicted molecular weights of peaks from SEC using the SEC calibration curve.