Team:Utah State/Results

From 2013.igem.org

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                 Flux balance analysis (FBA)
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              Optimizing production of AMPs with OptKnock
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Revision as of 01:40, 26 September 2013



Expression of AMPs in E. coli

Text descriptions go here.

Microscope images

Text descriptions go here.

N-terminal protein purification

To demonstrate that the N-terminal 10x His Tag (BBa_K1162009) functions correctly, it was cloned in front of Green Florescent Protein (GFP)with the lac promoter+rbs system (BBa_K208010)to give the complete construct BBa_K1162013. This construct was expressed in E. coli grown in 50mL LB media with the addition of chloramphenicol and induced with IPTG. After allowing to grow overnight the cells were spun down and protein was purified with a nickel spin column (see protein purification protocol on protocols page). Fractions from this nickel spin column procedure were saved and run on an SDS-PAGE gel (see below). Since this was a GFP purification procedure, the different fractions were dotted on parafilm and place on a UV gel box to visualize the protein (see below).

      GFP GFP GFP

From the SDS-PAGE gel it can be seen that there is pure GFP (~26.9 kDa) in the elution fraction number 2 and 3. The wash fractions do not appear to have any GFP which indicates that the N terminal 10x His Tag is strongly bound to the Nickel Column during washing steps. Coupled with the GFP dot image it is clear that this method of purification works as desired and adds another purification system to the registry.

After demonstration that the N-terminal purification system functioned as desired, other constructs were built to purify protein using this method.

To demonstrate that antimicrobial spider silk could be manufactured in E. coli, the AMP LL-37 (BBa_K1162006) was fused to 8 repeats of spider silk (BBa_K844004. A lac inducible promoter system (BBa_K208010), 10x His Tag (BBa_K844000), and double terminator (BBa_B0015) were added to create the first antimicrobial spider silk generator with BioBricks.

Modeling Structures of AMPs

To visually monitor the structures of AMPs, amino acid sequences were entered into the Protein Homology/analogY Recognition Engine (PHYRE2,Protein structure prediction on the web: a case study using the Phyre server Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009),http://www.sbg.bio.ic.ac.uk/~phyre2/html/page.cgi?id=index). Output for each of the AMPs used by Utah State iGEM 2013 team is given below. Note: Grammistin (BBa_K1162003) was too small to model with this program. Interestingly when amino acid sequence for each AMP was entered into the program fused with 10x Histag, no change was seen the in the protein structure.


EcAMP (BBa_K1162001) structure


Spheniscin (BBa_K1162002) structure


Cg-Defh1 (BBa_K1162004)structure


Scygonadin (BBa_K1162005)structure


LL37(BBa_K1162006)structure


WAM1(BBa_K1162007)structure


OHCATH (BBa_K1162008)

Flux balance analysis (FBA)

Text descriptions go here.



Optimizing production of AMPs with OptKnock

Text descriptions go here.