MaCPepDB - Mass Centric Peptide Database

MaCPepDB provides rapid access to tryptic peptides derived from UniProtKB (Swiss‑Prot and TrEMBL) for mass‑spectrometry‑based proteomics, enabling sequence‑ and mass‑centric queries including posttranslational modification mass variants.

Key Features:

• Comprehensive Peptide Database: Contains 5,939,244,990 tryptic peptides from 185,561,610 proteins derived from UniProtKB (version 2020_03).
• Query Flexibility: Supports peptide‑sequence queries to retrieve associated proteins and assess peptide uniqueness and mass‑based queries to find peptides or precursor ions for specified masses used in SRM and PRM.
• Posttranslational Modifications (PTMs): Accommodates queries incorporating PTMs and their mass deviations to identify modified peptides.
• Efficiency: Executes queries with low latency, typically returning results in less than one second.

Scientific Applications:

• Proteome Identification: Provides the complete tryptic digest of UniProtKB entries to support peptide identification from tandem mass spectra acquired by data‑dependent acquisition.
• Targeted Proteomics: Enables selection of peptide targets by mass and modification state for SRM and PRM experiments.
• Interference Analysis: Identifies potentially interfering peptides in targeted proteomic experiments to assess assay specificity.

Methodology:

Integrates UniProtKB sequence data into a mass‑centric framework that encodes peptide sequence information and mass properties to enable robust sequence‑ and mass‑based querying.