Beyond its established role in synaptic transmission, SNAP-25 has attracted increasing attention as a candidate biomarker of neuronal injury and synaptic dysfunction. Elevated concentrations of SNAP-25 have been reported in several neurological disorders, where the protein has been investigated as a potential indicator of synaptic degeneration and neurodegenerative disease processes.

Proteins undergoing physiological turnover, proteolytic regulation, and pathological modification generate complex populations of peptide fragments. Experimental studies have shown that SNAP-25 can be proteolytically cleaved by endogenous proteases as well as bacterial neurotoxins such as Botulinum neurotoxin type A and Botulinum neurotoxin type E. However, the potential repertoire of SNAP-25-derived peptide fragments has not previously been systematically characterized.

The SNAP-25 Degradome Foundation Atlas addresses this gap by enumerating the theoretical peptide landscape that may arise from enzymatic or chemical cleavage of the SNAP-25 primary sequence. Each predicted fragment is annotated with a comprehensive panel of physicochemical properties relevant to proteomics, biomarker discovery, and computational peptide analysis.

The dataset comprises every predicted proteolytic fragment derived from the human SNAP-25 primary sequence based on defined cleavage boundaries. The atlas currently includes both major splice variants of SNAP-25 (isoforms A and B), which arise through alternative splicing and are differentially expressed during neuronal development.

The resulting fragment space includes overlapping peptides spanning the entire protein sequence.

For each peptide, the dataset provides:

• Peptide identifier and coordinates (start and stop positions)
• Amino acid sequence
• Calculated mass-to-charge ratio (m/z)
• Molecular weight (Da)
• Boman index
• Net charge
• Isoelectric point (pI)
• Hydrophobicity
• Instability index
• Aliphatic index

These features provide a unified, feature-rich representation suitable for mass-spectrometry analysis, biomarker discovery, and computational proteomics workflows.

The Degradome Atlas was generated using a reproducible Python workflow consisting of the following steps:

Definition of cleavage sites
Experimentally reported and computationally defined cleavage positions were specified along the SNAP-25 amino-acid sequence.

Fragment enumeration
All pairwise subsequences between cleavage boundaries were generated, producing the complete theoretical fragment space of the protein.

Peptide property calculation
Physicochemical properties were calculated using the peptides Python library.

Structured data export
All peptide information was exported as structured CSV tables.

Dataset consolidation
Output files were merged and compressed into a single FAIR-compliant archive (TAR.XZ format) to facilitate efficient distribution and reproducibility.

The complete Python workflow is included in the repository, enabling transparent re-execution and extension to additional proteins, cleavage definitions, or sequence variants.

Primary file

SNAP25_Degradome_Foundation_Atlas_v1.tar.xz

Contents

• CSV tables containing all predicted peptide fragments and calculated properties
• Python scripts used to generate the degradome dataset
• Documentation describing the workflow and dataset structure

File Type

ASCII comma-separated values (CSV)

Compression

xz -9 -T0 (maximum parallel compression for efficient distribution)

The dataset can be used directly in:

• Python (pandas, NumPy)
• R
• MATLAB
• SAS
• Excel / LibreOffice

It can also be integrated into proteomics workflows, including:

• Skyline
• MaxQuant preprocessing
• MS/MS spectral library construction
• computational peptide modelling pipelines

This dataset follows FAIR data principles.

Findable
Rich metadata, persistent DOI, and a search-optimized dataset description.

Accessible
Publicly available through the open-access Figshare repository.

Interoperable
Standard CSV format and widely used physicochemical descriptors enable integration with common computational and proteomics tools.

Reusable
The dataset includes a fully reproducible Python workflow and transparent data generation pipeline.

The SNAP-25 Degradome Foundation Atlas enables research across several biomedical and computational domains:

• Biomarker discovery in neurodegenerative disease
• Mass-spectrometry assay development
• Computational proteomics and peptide modelling
• Neo-epitope discovery and immunological studies
• Proteolytic pathway analysis
• Systems-level degradomics

The dataset may also serve as a reference framework for interpreting peptide-level signals detected in cerebrospinal fluid or blood proteomic studies of neurological disease.

This release represents Version 1 of the SNAP-25 Degradome Foundation Atlas.

Future updates will incorporate:

• additional experimentally validated cleavage sites
• disease-associated sequence variants of SNAP-25
• experimentally detected peptide fragments
• integration with other degradome atlases to support systems-level biomarker research

These developments will progressively refine modelling of SNAP-25 proteolysis in health and neurodegenerative disease.

If you use this dataset, please cite the associated Figshare record: Doi:10.5522/04/32111917