AbDesigner3D: a structure-guided tool for peptide-based antibody production

作者：Saethang Thammakorn; Hodge Kenneth; Kimkong Ingorn; Payne D Michael; Knepper Mark A; Pisitkun Trairak^*

来源：Bioinformatics, 2018, 34(12): 2158-2160.

DOI：10.1093/bioinformatics/bty055

A Summary: We present AbDesigner3D, a new tool for identification of optimal immunizing peptides for antibody production using a peptide-based strategy. AbDesigner3D integrates 3D structural data from the Protein Data Bank (PDB) with UniProt data, which includes basic sequence data, post-translational modification sites, SNP occurrences and more. Other features, such as uniqueness and conservation scores, are calculated based on sequences from UniProt. The 3D visualization capabilities allow an intuitive interface, while an abundance of quantitative output simplifies the process of comparing immunogen peptides. Important quantitative features added in this tool include calculation and display of accessible surface area (ASA) and protein-protein interacting residues (PPIR). The specialized data visualization features of AbDesigner3D will greatly assist users to optimize their choice of immunizing peptides.

• 出版日期2018-6-15
• 单位NIH