Paratope Characterization of Antibody

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Paratope Characterization of Antibody

Creative Biolabs possesses unchallenged experience in antibody-antigen complex analysis. With our well-developed antibody-antigen complex analysis platform, we offer high-quality paratope characterization service to assist you to generate an expected antibody.

Paratope Characterization

The paratope is the antigen-binding site of an antibody, which recognizes an antigen. Paratope is a part of the antibody's Fv region and comprises parts of the antibody's heavy and light chains. The epitope is the part of the antigen to which the paratope binds. Paratope characterization is the analysis of the binding sites or paratopes of antibodies which recognized by antigens. Currently, identification of the antibody paratopes becomes increasing important in vaccines and bio-therapeutics development. There are a variety of essential uses to understand the paratope in the antibody, such as predicting appropriate antigens as vaccine components, enhancing our knowledge of the immune response and autoimmunity, getting a supernormal understanding of a therapeutic antibody’s mechanism of action.

Paratope Prediction Using Computational Procedure

Creative Biolabs has developed a comprehensive computational procedure to predict paratope residues and their partners. This novel procedure mainly contains three parts: molecular dynamics (MD) simulations, rigid-body docking, and homology modeling. With the computational procedure, it is available to determine key paratope residues on the target antibody and their epitope on the antigen. MD simulation is a powerful process which uses computational phenomena to assess the time span reliant behavior of a biosystem. It enables to provide complete and sufficient data upon the fluctuations and conformational variations of proteins and further of the varied nucleic acids. Rigid-body docking is the most feasible procedure for studying the interactome depended on protein structures using current computational technology. Homology modeling builds atomic-resolution models of the protein from its amino acid sequence, and furthermore builds an experimental three-dimensional structure of a correlative isogenous protein.

Paratope Characterization of AntibodyFig 1. Schematic diagram of the predicted interaction residues on interface of GPVI-10B12. Part A shows the key residues on GPVI and Part B shows the key residues on 10B12. (Liu, W., 2016)

Paratope Prediction Using Other Methods

Creative Biolabs also provides other methods for paratope prediction, including Hydrogen-deuterium exchange and mass spectrometry, Hopfield network, as well as peptide-based approaches. Peptide-based methods are depended on the composition of overlap peptides, however, the peptides must comprise the entire sequence of the antigen. Using a Hopfield Network while representing the paratope and epitope in a complex as 3-dimensional attributed graphs, a mapping is evaluated from a random training sample while representing. With the help of KBCM when using Hopfield Network, mapping paratope on immunoglobulins to the epitopes can be available.

With our advanced paratope characterization service, designing and engineering novel antibodies with desired properties is available. We customize the service according to the specific requirements from our customers, and our service will contribute greatly to the success of your project. We also provide other antibody-antigen complex analysis services. Please contact us for more information and a detailed quote.


  1. Liu, W., (2016). “Computer prediction of paratope on antithrombotic antibody 10B12 and epitope on platelet glycoprotein VI via molecular dynamics simulation.” Biomedical engineering online, 15(2), 152.
  2. Matsuzaki, Y., (2014). “Protein-protein interaction network prediction by using rigid-body docking tools: application to bacterial chemotaxis.” Protein and peptide letters, 21(8), 790-798.
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