Creative BioMart to Present at
                        BIO-Europe Spring Creative BioMart to Present at AACR Annual Meeting|Apr. 5-10, 2024|Booth #2953

Sequence Based Protein Design

Sequence based protein design is a computational approach of rational design based on protein sequences. Valuable structural and functional information of proteins is mainly coded in its amino acid sequence. Therefore, it is critical to analyze the protein primary sequence to explore the information related to its evolution, co-evolutionary mutations, and hotspot residues for improved functionalities and stabilities. Several typical methods have been developed to extract essential information based on the primary sequences, including multiple sequence alignments (MSA) and co-evolutionary analysis.

MSA is a sequence alignment method based on aligning and comparing the sequence of interest with a template sequence. This method provides the information by regarding the residues that are conserved and essential for protein stability and functionality. It is used by researchers to identify the conserved motifs, active site residues, and to build homology models. Typical tools of MSA include Clustal Omega, MAFFT, K-Align, MUSCLE, and T-Coffee. Co-evolutionary analysis, on the other hand, is an analysis based on co-evolving residue pairs that provide information about the correlated amino acid mutations prevailed in the protein family because of evolutionary changes and are critical for protein engineering.

After computational design for improved properties, the designed sequences are general validated experimentally through methods such as peptide synthesis, site-directed mutagenesis, or artificial gene synthesis with unnatural base pair (UBP) involved.

Creative BioMart provides services of rational protein design via sequence-based tools for improved functionalities and stabilities. With advanced computational and experimental approaches, we offer professional one-stop services:

  • Multiple sequence alignments (MSA).
  • Co-evolutionary analysis.
  • Predicted sequence experimental validation.
  • Target protein expression, purification and characterization.

Reference:

  1. Gulati, K., Poluri, K.M. (2016) An overview of computational and experimental methods for designing novel proteins. Recent Patents on Biotechnology. 10: 235-263.

Rational design with sequence based tools.Figure 1 Sequence based computational approaches for designing and identifying different protein folds.
(Recent Patents on Biotechnology 2016)

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