1. BLAST RID:
Please input the RID below(you may find the RID after the submission to blastp):
The Consensus Designer web tool is a powerful and efficient tool for designing protein consensus sequences. It is specifically designed to enhance the stability of proteins, enabling them to function optimally at higher temperatures and exhibit better soluble expression when expressed recombinantly.
To generate a consensus sequence, the tool utilizes the BLAST (Basic Local Alignment Search Tool) RID (Request ID) as a starting point. Users are required to submit their protein sequence to a BLAST search against the NCBI database. The tool will download the results from NCBI with the RID.
The retrieved sequences are aligned, ensuring the removal of redundant or highly similar sequences. The alignments are then truncated to match the original query sequence's size, preserving only the relevant regions for analysis. The tool subsequently analyzes the aligned sequences to identify patterns and determine the consensus sequence.
The output of the Consensus Designer web tool includes a trimmed alignment of the retrieved sequences, the consensus sequence derived from the alignment, and frequency/count tables for each amino acid at every position. Additionally, a sequence logo map is generated, providing a visual representation of the consensus sequence.
In the field of genome mining, which has played a pivotal role in discovering enzymes with desirable properties, the combination of biological features such as thermophilicity and sequence-based methods like BLAST has proven to be a dominant approach. Although many enzymes with industrial applications have been identified through this approach, it is often necessary to redesign them to withstand the challenging conditions of industrial processes.
Directed evolution, a Nobel Prize-winning technique, has shed light on the power of evolution for guiding enzyme redesign. Consensus analysis has emerged as a successful strategy for improving the thermostability of enzymes. By studying how thermophilic organisms have evolved to thrive in high-temperature environments, valuable insights can be gained to aid in the redesign of enzymes for enhanced stability.
The Consensus Designer web tool harnesses this knowledge and provides researchers and scientists with an efficient platform to generate well-informed protein consensus sequences and predict potentially stabilizing mutations. It empowers users to design enzymes tailored to their specific applications, facilitating progress in industrial enzyme design and other protein engineering endeavors.
- 1. Sternke M, Tripp KW, Barrick D. The use of consensus sequence information to engineer stability and activity in proteins. Methods Enzymol. 2020;643:149-179. doi: 10.1016/bs.mie.2020.06.001. Epub 2020 Jul 17. PMID: 32896279; PMCID: PMC8098710.