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High-throughput 3D Epitope Mapping

Make decisions with confidence and lower ambiguity

Leverage the Gold-Standard of Epitope Mapping

We generate precise 3D molecular blueprints of your Antigen-Antibody complex to enable detailed insights for advanced research and development.

High-throughput 3D Epitope Mapping

Delivering clear results before lead canditate selection

Evaluate an entire lead series to enable more informed decision-making.

High-throughput 3D Epitope Mapping Screening

Lead Series
10's of candidates

Standard
Procedure

(Lead-) candidate
1 candidate
The ATEM 3D Epitope mapping options

Generate key insights fit for purpose at intermediate - & high resolutions

ATEM offers two analysis options to meet your budget and timeline requirements.

Intermediate
Resolution

Fast & Economical

Ideal for rational lead candidate selection AI model validation.

  • Eliminate data ambiguity 
  • Verify your orthogonal results 
  • Ensure budget is spend wisely  
  • Empirically validate computational structural predictions 
  • Train & optimize AI models  
Get 5 structures in just 3 weeks

High
Resolution

Maximal Structural Details

Ideal for high-end Mode of Action studies, lead optimization, IND filings, & patent applications.

Our Options

Key insights, tailored to your needs

We recognize that every client has unique needs and preferences. Explore our dedicated options to make your project benefit from readily available Gold Standard 3D Epitope Mapping data.

Intermediate
Resolution
High
Resolution
streamlined & transparent process

Project workflow

We ensure that your project is completed on time, within budget, and to your highest satisfaction. Here’s a step-by-step overview of how our process works.

1. Pilot Phase
An initial cryo-EM​ Pilot Study​ ensures that all sample materials are of sufficient quality for subsequent 3D epitope mapping procedures. 
2. Biochemical Optimization
(if necessary)
Biochemical optimization work to improve structural homogeneity of the Target complexes (if required).
3. Medium Resolution 3D Epitope Mapping Phase
Generate Medium Resolution 3D Epitope Mapping Results.
4. High ​ Resolution 3D Epitope Mapping Phase
Conclude with High Resolution 3D Epitope Mapping Data of the Target complex.

What you can learn from Cryo-EM 3D Epitope Mapping

Where does my Antibody bind the Target/Antigen?

From intermetiate resolutions and higher, it is possible to distinguish the binding area of the antibody on the protein. The specificity of binding area details increases with higher resolutions.

At high resolutions (under 4 Å) it is possible to distinguish separate amino acids and confirm precise binding areas. At lower resolutions, mostly larger amino acids are distinguishable.

By comparing different 3D structures of protein-antibody complexes, it is possible to see whether antibodies sterically clash.

Some antibodies may induce conformational changes within protein structures. 3D structural information can specify where, and what changes occur.

Antibody binding may affect multimerization, for example inhibiting dimerization. With 3D structure information, these disruptions are spotted.

FAQs

Required samples volume Antigen & FAB

Required sample amount*
A minimum of 0.5 mg protein, 0.5 mg Fab or 1 mg antibody.

We accept all formats, however, IgGs can be difficult to fully resolve in 3D. Therefore, we recommend FABs, and also offer FAB isolation from IgG antibodies.

Cryo-EM is possible for investigating PROTAC complexes. For optimal results, it requires stable formation of preferably large complexes.

The Pilot Phase quickly assesses project viability for continuation to intermediate resolutions. In some cases, the project requires additional biochemical work to increase stability or orientations of the sample on cryo-grids.

Yes, cryo-EM works for membrane proteins in both detergent and reconstituted conditions.

Resources and Insights

Lipid Nanoparticles
Analyze our newest empirical case study data with us to ...
12 February 2025
Lipid Nanoparticles
LNP meets high-throughput Cryo-EM: Reliably quantifying LNP morphology The never-ending ...
10 April 2024
Structural Biology
REMSCHEID, NORTH RHINE-WESTPHALIA, GERMANY, March 1, 2023. ATEM Structural Discovery ...
31 August 2023

Curious to learn more about ATEM’s 3D Epitope mapping services?

Tell us about your project

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