Team:Heidelberg/pages/Parts

From 2014.igem.org

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Inteins are the basic unity of our toolbox. They are integrated as extraneous polypeptide sequences into habitual proteins and do not follow the original protein function but perform an autocatalytic splicing reaction, where they excite themselves out of the host protein while reconnecting the remaining chains on both end, so called N and C exteins, via a new peptide bond. Read more about it in our [http://2014.igem.org/Team:Heidelberg/Project/Background| project background]!
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Inteins are the basic unity of our toolbox. They are integrated as extraneous polypeptide sequences into habitual proteins and do not follow the original protein function. Inteins perform an autocatalytic splicing reaction, where they excite themselves out of the host protein while reconnecting the remaining chains on both end, so called N and C exteins, via a new peptide bond. Read more about it in our [http://2014.igem.org/Team:Heidelberg/Project/Background| project background]!
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To characterize the different types and groups we collect many details about intein to develop a intein library. The intein library gives you a great and clear overview about the most important facts.
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To characterize the different types and groups of split-inteins and inteins we collect many details about them to develop a intein library. It gives you a great and clear overview about the most important facts.
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Revision as of 22:58, 16 October 2014

Favorite Parts.

The iGEM Team Heidelberg 2014 had built a new biological system for the iGEM community integrating split-inteins. Intein splicing is a natural process that excises one part of a protein and leaves the remaining parts irreversibly attached. This great function allows you to modify your protein in numerous ways.

Creating a toolbox including all great functions and possibilities of inteins, we need a new standard for the scientific world of iGEM. This standard, the RFC of the iGEM Team Heidelberg 2014, allows us to easily and modulary work with split inteins.

Our favorite Parts represent the basic constructs of our toolbox – the Assembly and the Circularization construct, which are both tested in many methods and applications.

In the following we present you BBa_K1362000, the construct for circularization, BBa_K1362100 and BBa_K1362101, the N- and the C-construct for assembly. Take a look and visit the Partsregistry to read the associated documentation.



Circularization Construct. BBa_K1362000

BBa_K1362000

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Circularization Construct

Assembly Constructs. BBa_K1362100 and BBa_K1362101

BBa_K1362100

This intein assembly construct is part of our strategy for cloning with split inteins. Inteins are naturally occuring peptide sequences that splice out of a precursor protein and attach the remaining ends together to form a new protein. When splitting those intein sequence into an N-terminal and a C-terminal split intein one is left with a powerful tool to post-translationally modify whole proteins on the amino-acid sequence level. This construct was designed to express any protein of interest fused to the Nostoc punctiforme DnaE N-terminal split intein.

Assembly Constructs

BBa_K1362101

BBa_K1362101 is the corresponding C-terminal construct to BBa_K1362100. Upon coexpression or mixture of the N- and C-constructs protein splicing takes place and the N- and C-terminal proteins of interest are irreversibly assembled via a newly formed peptide bond.

This mechanism can be applied for a variety of different uses such as the activation of a protein through reconstitution of individually expressed split halves. See our split sfGFP experiment and the respective parts in the registry for more information. Protein splicing offers many new possibilities and we hope to have set a foundation that you guys can build on!

Assembly Constructs
Circularization Construct

Sample Data Page for our favorite Parts.

Circularization Construct. BBa_K1362000


Circularization Construct
Customize your constructs by cloning your protein of interest and your designed linker into our cicularization standard.
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Assembly Construct. BBa_K1362100 and BBa_K1362101

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Circularization Construct
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Circularization Construct

Intein Library.


Inteins are the basic unity of our toolbox. They are integrated as extraneous polypeptide sequences into habitual proteins and do not follow the original protein function. Inteins perform an autocatalytic splicing reaction, where they excite themselves out of the host protein while reconnecting the remaining chains on both end, so called N and C exteins, via a new peptide bond. Read more about it in our project background!

To characterize the different types and groups of split-inteins and inteins we collect many details about them to develop a intein library. It gives you a great and clear overview about the most important facts.

Split intein Special features Nint Cint Reaction propterties Origin References
Npu DnaEfast; robust at high temperature range and high-yielding trans-splicing activity, well characterised requirements10236t1/2 = 63s , 37°C , k=~1x10^-2 (s^-1); activity range 6 to 37°CS1 natural split intein, Nostoc punctiforme[1] [2]
Ssp DnaXcross-reactivity with other N-inteins, transsplicing in vivo and in vitro, high yieldsk=~1.7x10^-4(s^-1); efficiency 96%engineered from Synechocystis species[3] [4]
Ssp GyrB very short Nint facilitates trans-splicing of synthetic peptides6150k=~1x10^-4(s^-1), efficiency 40-80%S11 split intein enginered from Synechocystis species, strain PCC6803[4] [5]
Ter DnaE3trans-splicing activity with high yields10236k=~2x10^-4(s^-1), efficiency 87%natural split intein, Trichodesmium erythraeum[4] [6]
Ssp DnaBrelatively fastt1/2=12min, 25°C, k=~1x10^-3(s^-1)engineered from Synechocystis species, strain PCC6803[2]
Gp41-1fastes known reaction 8838t1/2=20-30s, 37°C, k=~1.8x10^-1 (s^-1); activity range 0 to 60°Cnatural split intein, Cyanophage[7] [8]

References

[1] Iwai, H., Züger, S., Jin, J. & Tam, P.-H. Highly efficient protein trans-splicing by a naturally split DnaE intein from Nostoc punctiforme. FEBS Lett. 580, 1853–8 (2006).

[2] Zettler, J., Schütz, V. & Mootz, H. D. The naturally split Npu DnaE intein exhibits an extraordinarily high rate in the protein trans-splicing reaction. FEBS Lett. 583, 909–14 (2009).

[3] Song, H., Meng, Q. & Liu, X.-Q. Protein trans-splicing of an atypical split intein showing structural flexibility and cross-reactivity. PLoS One 7, e45355 (2012).

[4] Lin, Y. et al. Protein trans-splicing of multiple atypical split inteins engineered from natural inteins. PLoS One 8, e59516 (2013).

[5] Appleby, J. H., Zhou, K., Volkmann, G. & Liu, X.-Q. Novel Split Intein for trans-Splicing Synthetic Peptide onto C Terminus of Protein. J. Biol. Chem. 284, 6194–6199 (2009).

[6] Liu, X.-Q. & Yang, J. Split dnaE genes encoding multiple novel inteins in Trichodesmium erythraeum. J. Biol. Chem. 278, 26315–8 (2003).

[7] Carvajal-Vallejos, P., Pallissé, R., Mootz, H. D. & Schmidt, S. R. Unprecedented rates and efficiencies revealed for new natural split inteins from metagenomic sources. J. Biol. Chem. 287, 28686–96 (2012).

[8] Dassa, B., London, N., Stoddard, B. L., Schueler-Furman, O. & Pietrokovski, S. Fractured genes: a novel genomic arrangement involving new split inteins and a new homing endonuclease family. Nucleic Acids Res. 37, 2560–73 (2009).


List of Parts - Placeholder

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