melanierb/ProteinSpace-TheraHuman-mAbs

Dataset Description

ProteinSpace-TheraHuman-mAbs is a curated collection of therapeutic antibody sequences derived from the Thera-SAbDab database. The dataset contains 1,400 antibody chain sequences (700 heavy chains and 700 light chains) from 700 therapeutic antibodies, all of which are either genetically human or humanized whole monoclonal antibodies (mAbs). Each sequence has been processed with ANARCI (Antibody Numbering and Receptor ClassIfication) to provide IMGT-numbered positions, region boundaries (framework and CDR regions), and germline gene assignments.

Dataset Summary

Total sequences: 1,400 (700 heavy chains + 700 light chains) Therapeutic antibodies: 700 Format: Whole mAb and Whole mAb ADC only Genetics: Genetically human and Humanized only Numbering scheme: IMGT Regions annotated: FWR1, CDR1, FWR2, CDR2, FWR3, CDR3, FWR4

Dataset Structure

Data Fields

'sequence (string)': The amino acid sequence of the antibody chain (variable domain only, extracted via ANARCI) 'locus (string)': Chain type - "H" for heavy chain, "K" for kappa light chain, "L" for lambda light chain 'therapeutic (string)': Name of the therapeutic antibody 'genetics (string)': Genetic origin - either "Genetically human" or "Humanised" 'anarci_numbers (list of integers)': IMGT position numbers for each residue in the sequence 'region_ends (list of 7 integers)': Cumulative end positions for [FWR1, CDR1, FWR2, CDR2, FWR3, CDR3, FWR4] 'v_genes (string)': Assigned V gene from germline analysis 'd_genes (string)': Assigned D gene from germline analysis (heavy chains only) 'j_genes (string)': Assigned J gene from germline analysis

Data Splits

This dataset does not have predefined splits. Users should create their own train/validation/test splits based on their specific use case. We recommend splitting at the therapeutic antibody level (not individual chains) to avoid data leakage.

Dataset Creation

Source Data

The dataset is derived from Thera-SAbDab (Therapeutic Structural Antibody Database), available at: https://opig.stats.ox.ac.uk/webapps/newsabdab/therasabdab/ Thera-SAbDab is a curated database maintained by the Oxford Protein Informatics Group containing structural and sequence information for therapeutic antibodies.

###Data Collection and Processing The processing pipeline consisted of the following steps:

1. Initial data: Downloaded from Thera-SAbDab (1,133 therapeutic antibodies)
2. Filtering criteria:

• Format: Only "Whole mAb" and "Whole mAb ADC"
• Genetics: Only "Genetically human" and "Humanised"
• Result: 700 therapeutic antibodies

3. Chain separation:

• Heavy chains and light chains separated into individual records
• Light chain locus mapped: Kappa → "K", Lambda → "L"

4. ANARCI processing:

• IMGT numbering scheme applied to all sequences
• Variable domain boundaries identified and extracted
• CDR and framework regions annotated based on IMGT positions
• Germline V, D, and J gene assignments obtained

5. Region boundary calculation:

• IMGT region definitions applied:
• Heavy chains: FWR1 (1-26), CDR1 (27-38), FWR2 (39-55), CDR2 (56-65), FWR3 (66-104), CDR3 (105-117), FWR4 (118-128)
• Light chains: FWR1 (1-26), CDR1 (27-38), FWR2 (39-55), CDR2 (56-65), FWR3 (66-104), CDR3 (105-117), FWR4 (118-127)

Annotations

All annotations are computationally derived using ANARCI:

• IMGT numbering: Automated using ANARCI with the IMGT scheme
• Germline genes: Assigned by ANARCI's built-in germline assignment functionality
• Region boundaries: Calculated based on IMGT position definitions No manual annotation was performed.

Considerations for Using the Data

Limitations

• The dataset contains only whole mAbs and whole mAb ADCs; other antibody formats (Fabs, scFvs, bispecifics, etc.) are excluded
• Only genetically human and humanized antibodies are included; chimeric and other formats are not represented
• Sequences are limited to the variable domain as identified by ANARCI; constant regions are not included
• A small number of sequences may have failed ANARCI processing and are excluded from the final dataset
• Germline gene assignments are computational predictions and may not reflect the actual genetic origin in all cases
• The dataset represents therapeutic antibodies as documented in Thera-SAbDab up to the download date (25.01.2026) and may not include the most recent therapeutics

Additional Information

Licensing

Please refer to the Thera-SAbDab terms of use: https://opig.stats.ox.ac.uk/webapps/newsabdab/therasabdab/ This dataset is derived from publicly available therapeutic antibody sequences. Users should comply with all applicable licenses and terms of use from the original data source.

Version: 1.0 Last Updated: February 2026