Coding

Part:BBa_K1317003:Design

Designed by: Mounir Benkoulouche   Group: iGEM14_Bordeaux   (2014-10-07)
Revision as of 21:04, 16 October 2014 by Mounir (Talk | contribs)

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CDS for Elastin like polypeptide (ELP)


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 312
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

The gene has been assembled by using overlapping oligos and Gibson assembly. The restriction site NheI has been added to get rid of the STOP codon. It is an improvement in the biobricks system, because it can be used to reassemble the coding sequence. For example in our project, another copy of the gene can be added just after the first one, so influence of the length of the final polymer on mechanical properties can be determined.

The design and in-silico cloning has been performed on Genome Compiler

Consensus sequence:

In the literature we found out that the natural elastin has some repetitions, in particular the sequence VPGXG seems to be repeated. X is V, L, or A, and it represents 9% of the whole polypeptide. This particular sequence were translated with codon optimization for E.coli to produce a (VPGXG)x protein. Elastin properties were checked to see if they are still existing after cloning into bacteria to produce the recombinant protein named elastin like polypeptide (ELP).

Bdx2014 Vpgxg2.png

Cloning

Bdx2014 ELP design.png

Primers to amplify the insert in the original pet44a vector:

Forward Primer : 5’ TAATACGACTCACTATAGGGGAATTGT 3’

Reverse Primer : 5’ ATACTAGTCAGCAGGCGCGCCTGTACAGTATTC 3’

Source

Homo Sapiens (GenBank accession number: AAC98394)

References

[1] Doreen M. Floss et al. ELASTIN-like polypeptides revolutionize recombinant protein expression and their biomedical application. Trends in Biotechnology Vol.28 No.1 (PMID 19897265)

[2] Dan W. Urry Entropic Elastic Processes in Protein Mechanisms. I. Elastic Structure Due to an Inverse Temperature Transition and Elasticity Due to Internal Chain Dynamics. Journal of Protein Chemistry, Vol. 7, No.. I, 1988

[3] Dan W. Urry. Physical Chemistry of Biological Free Energy Transduction As Demonstrated by Elastic Protein-Based Polymers. J. Phys. Chem. B 1997, 101, 11007-11028

[4] Dan E. Meyer and Ashutosh Chilkoti. Purification of recombinant proteins by fusion with thermally-responsive polypeptides. NATURE BIOTECHNOLOGY VOL 17 NOVEMBER 1999

[5] Trabbic-Carlson et al. (2004), Expression and purification of recombinant proteins from Escherichia coli: Comparison of an elastin-like polypeptide fusion with an oligohistidine fusion. Protein Science, 13: 3274–3284. doi: 10.1110/ps.04931604

[6] K. Trabbic‐Carlson et al. Effect of protein fusion on the transition temperature of an environmentally responsive elastin‐like polypeptide: a role for surface hydrophobicity? Protein Engineering, Design and Selection (2004) 17 (1): 57-66. doi: 10.1093/protein/gzh006