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How can I retrieve all UniProtKB entries for which the 3D structure is known?

Last modified September 3, 2013

1 - Retrieve all UniProtKB entries for which the 3D structure is known

Using the query builder:

  • Select Search in: Protein Knowledgebase (UniProtKB)
  • Click Advanced Search » to open the query builder
  • Select Field: Cross-reference [DR]
  • Select Database: PDB
  • Click Add & Search
  • Depending on your interests, choose amongst the following: Show only reviewed (UniProtKB/Swiss-Prot) or unreviewed (UniProtKB/TrEMBL) entries
  • result (reviewed entries only).

2 - Retrieve all proteins with 3D structures determined by Electron microscopy (EM)

Other methods: Model, X-ray, NMR, Neutron (Neutron diffraction), Fiber (Fiber diffraction), IR (Infrared spectroscopy)

Using the query builder:

  • Select Search in: Protein Knowledgebase (UniProtKB)
  • Type Method:EM
  • Click Search
  • Depending on your interests, choose amongst the following: Show only reviewed (UniProtKB/Swiss-Prot) or unreviewed (UniProtKB/TrEMBL) entries
  • result (reviewed entries only).
  • You can combine query such as: "myoglobin AND method:X-ray":
  • result.