Modified Penicillium funiculosum CBHI with 6X His tag
Temperature and pH optimized cellobiohydrolase I coding sequence from Penicillium funiculosum with 6x HIS tag.
Usage and Biology
Yarrowia lipolytica is an emerging chassis in the molecular biology community. Its unique metabolic properties and efficient protein production and secretion mechanisms make it a desirable chassis for heterologous protein expression/secretion. In fact, it has been shown to have better secretory mechanisms than Saccharomyces cerevisiae (1). Therefore, using this chassis to secrete cellulase enzymes- which are enzymes that require high levels of secretion, is well suited.
Fully functional cellulase is composed of:
- Endoglucanases (EG) which randomly cleave internal beta-bonds of cellulose polymers to make them shorter
- Cellobiohydrolases (CBH or exoglucanases) which cleave the shorter polymers to make cellobiose
- CBHI= Acts on reducing end of sugar molecule
- CBHII= Acts on non-reducing end of sugar molecule
These proteins must be in the correct proportions to each other to efficiently degrade cellulose.
CBHs provide the bulk of cellulose degradation by directionally degrading the polymers into cellobiose disaccharide units (2) While EGs enhance the ability of CBHs to act by producing more active sites for them, CBHs can still function at the ends of long cellulose polymers. Specifically, CBHI acts on the reducing ends of sugar polymers, whereas CBHII acts on the non-reducing ends. Together, these CBHs can efficiently degrade cellulose polymers from both directions.
The native signal peptide from P. funiculosum was removed so it would not interfere with fused secretion tags native to Y. lipolytica.
CHIMERIC PROTEIN CREATION AND MODELLING
To develop this modified PfCBHI we utilized a hybridized catalytic domain combining the sequence from P. funiculosum and T. reesei. These modifications allow the protein to operate at more moderate conditions for Y. lipolytica than the wild type protein. The linker sequence and cellulose-binding module were then added from the P. funiculosum wild type. These modifications were shown to increase the productivity of the protein and widen the operating parameters for the protein.
Structural models were generated to get a starting point for the protein. The predicted structure was then protonated in silico at numerous pHs. After protonation, the structures were solvated in water and underwent molecular dynamic simulation. Metrics around the simulations were taken and our modelling showed protein stability within the pH 3 to 7 range.
USAGE IN EXPRESSION CONSTRUCTS
This coding sequence was attached to the Lip2 signal peptide (BBa_K1592000), the TEFin promoter (BBa_K3629001), and the XRP2 terminator (BBa_K3629004) in creation of the expression construct for this part (BBa_K3629013). We provided the fully functional expression construct in our collection for teams who want to transform and use this protein directly in Y. lipolytica, however just the coding sequence is provided here in case teams want to use different promoters and/or signal peptides.
The expression constructs in our collection that can be assembled together to form a Y. lipolytica strain(s) that can fully degrade cellulose are:
- BBa_K3629012= T. reesei CBHII expression construct
- BBa_K3629013= Modified P. funiculosum CBHI expression construct
- BBa_K3629014= N. crassa CBHI expression construct
- BBa_K3629016= Modified T. reesei EGI expression construct
- BBa_K3629017= T. reesei EGII expression construct
- BBa_K3629018= N. patriciarum BGS expression construct
A 6x HIS affinity tag was included in this part, however not for the purpose of purification in our project, but for use in ELISA and western blot detection by using antibodies specific to the tag. This presents a cheaper and more accessible option rather than acquiring an antibody specific to the entire protein. However, future teams may choose to use this tag in purification which may be necessary in further characterization experiments. A spacer with a thrombin cleavage site was included in case the tag interferes with the protein function. Furthermore, in case this protein is expressed in tandem with the other two CBHs provided in our collection, we made all three CBHs have different affinity tags so they can be individually purified and detected as they have similar molecular weights.
- BBa_K3629005= Modified P. funiculosum CBHI with 6x His tag
- BBa_K3629006= N. crassa CBHI with Myc tag
- BBa_K3629007= T. reesei CBHII with FLAG tag
Sequence and Features
- 10COMPATIBLE WITH RFC
- 12COMPATIBLE WITH RFC
- 21Illegal BglII site found at 564
Illegal BamHI site found at 1048
- 23COMPATIBLE WITH RFC
- 25Illegal NgoMIV site found at 46
- 1000COMPATIBLE WITH RFC
Codon optimized for expression and function in Y. lipolytica.
1. Celińska, E., Borkowska, M., Białas, W., Korpys, P., & Nicaud, J. M. (2018). Robust signal peptides for protein secretion in Yarrowia lipolytica: identification and characterization of novel secretory tags. Applied microbiology and biotechnology, 102(12), 5221–5233. https://doi.org/10.1007/s00253-018-8966-9
2. Taylor, L., Knott, B., Baker, J., Alahuhta, P., Hobdey, S., Linger, J., . . . Beckham, G. (2018, March 22). Engineering enhanced cellobiohydrolase activity. Retrieved October 28, 2020, from https://www.nature.com/articles/s41467-018-03501-8_