PeptideAtlas

PeptideAtlas peptide database

A multi-organism compendium of peptides identified in a large set of tandem mass spectrometry proteomics experiments. Mass spectrometer output files are collected for human, mouse, yeast, and several other organisms, and searched using the latest search engines and protein sequences.

IDPeptideAtlas
AccDB-0071
Homehttp://www.peptideatlas.org
EDAM topicPeptides and amino acids
EDAM topicPeptide identification and proteolysis
CategoryProteomic databases
CategoryPeptide identification database
CategoryMass spectrometry database
Taxonall

Available data

Data Format Query Link
Peptide identification HTML Protein ID (Ensembl) http://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/GetPeptides?row_limit=5000&atlas_build_id=182&display_options=ShowMappings%2CShowModifications&organism_id=2&biosequence_name_constraint=%s&QUERY_NAME=AT_GetPeptides&apply_action=QUERY
Peptide identification XML Protein ID (Ensembl) http://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/GetPeptides?row_limit=5000&atlas_build_id=182&display_options=ShowMappings%2CShowModifications&organism_id=2&biosequence_name_constraint=%s&QUERY_NAME=AT_GetPeptides&apply_action=QUERY&output_mode=xml
Peptide identification Text Protein ID (Ensembl) http://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/GetPeptides?row_limit=5000&atlas_build_id=182&display_options=ShowMappings%2CShowModifications&organism_id=2&biosequence_name_constraint=%s&QUERY_NAME=AT_GetPeptides&apply_action=QUERY&output_mode=tsv
Mass spectrometry data {Recommended transitions for human protein} HTML Protein ID (Ensembl) http://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/ViewMRMList?protein_name_constraint=%s&atlas_build_id=182&consensus_library_id=9&action=QUERY
Protein report {PeptideAtlas entry} HTML IPI protein ID http://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/GetProtein?atlas_build_id=242&protein_name=%s&action=QUERY
Protein report {PeptideAtlas entry} HTML Protein identifier {PeptideAtlas} https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/Search?action=GO&search_key=%s

Example queries

Data Format Query Example
Peptide identification HTML Protein ID (Ensembl) ENSP00000374576
Peptide identification XML Protein ID (Ensembl) ENSP00000374576
Peptide identification Text Protein ID (Ensembl) ENSP00000374576
Mass spectrometry data {Recommended transitions for human protein} HTML Protein ID (Ensembl) ENSP00000374576
Protein report {PeptideAtlas entry} HTML IPI protein ID IPI00795032
Protein report {PeptideAtlas entry} HTML Protein identifier {PeptideAtlas} P62258