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HMDB is offered to the public as a freely available resource. Use and re-distribution of the data, in whole or in part, for commercial purposes requires explicit permission of the authors and explicit acknowledgment of the source material (HMDB) and the original publication (see below). We ask that users who download significant portions of the database cite the HMDB paper in any resulting publications.

How to cite the HMDB database.

Protein/Gene Sequences (in FASTA Format)

Data SetProtein SequencesGene Sequences
All Metabolite Metabolizing Enzymes

Structures (in SDF Format)

Data SetSDF File
Metabolite Structures Download

Flat Files (in MetaboCard Format)

Data SetMetaboCard File
All Metabolites Download

Spectra

Data SetMetaboCard File
Mass Spectra Image Files Download
GC/MS Peak Lists Download
NMR Spectra FIDS Files Download
NMR Spectra Peaklist Files Download
13C NMR and 1H Download
Mass Spectra and NMR Spectra Files in HTML format Download

Protein/Gene Sequences (in FASTA Format)

Data SetProtein SequencesGene Sequences
All Metabolite Metabolizing Enzymes Download Download

Structures (in SDF Format)

Data SetSDF File
Metabolite Structures Download

Flat Files (in MetaboCard Format)

Data SetMetaboCard File
All Metabolites Download

Spectra

Data SetMetaboCard File
Mass Spectra Image Files Download
GC/MS Peak Lists Download
NMR Spectra FIDS Files Download
NMR Spectra Peaklist Files Download
13C NMR and 1H Download
Mass Spectra and NMR Spectra Files in HTML format Download

Protein/Gene Sequences (in FASTA Format)

Data SetReleased onProtein SequencesGene Sequences
All Metabolite Metabolizing Enzymes2016-04-24 Download Download

Structures (in SDF Format)

Data SetReleased onSDF File
Metabolite Structures2016-04-24 Download

Metabolite and Protein Data (in XML format)

Data SetReleased onXML File
All Metabolites2016-04-24 Download
All Proteins2016-04-30 Download

Spectra

Data SetDownload Link
Mass Spectra Image Files Download
GC/MS Peak Lists Download
NMR Spectra FIDS Files Download
NMR Spectra Peaklist Files Download
Spectra information (in XML format) Download