Happy Holidays and New year from the EMDB! Please be advised that the EMDB team will be operating at reduced capacity between December 15th - January 12th. With this in mind we would ask that you be prepared for longer reply times through both our helpdesk system and the OneDep deposition system. well done on a productive 2025, wishing you all the best and we will see you in 2026!
EMDB Solr Search Field Documentation
Specimen concentration unit
Unit of measurement for specimen concentration (e.g. mg/mL, mol/L).
Specimen concentration value
Numerical value of the sample concentration used during preparation.
Specimen Holder Name (suggest)
Name or description of the specimen holder used.
Specimen preparation type
Type of specimen preparation method used (e.g. negative stain, cryo-vitrification, resin embedding).
Spherical Aberration Corrector Details
Details of the spherical aberration corrector used in the microscope.
Staining type
Type or category of staining used in specimen preparation (e.g. negative stain, positive stain).
Staining material
Material used for staining (e.g. uranyl acetate, phosphotungstic acid).
Staining material (suggest)
Material used for staining (e.g. uranyl acetate, phosphotungstic acid).
In Silico Starting Model
Description or name of in silico generated starting model
In Silico Starting Model
Description or name of in silico generated starting model
Orthogonal Tilt Angle
Tilt angles used in orthogonal tilt reconstruction
Orthogonal Tilt Image Count
Number of images used in orthogonal tilt reconstruction
Orthogonal Tilt Software
Software used for orthogonal tilt method
Random Conical Tilt Angle
Tilt angle used in random conical tilt reconstruction
Random Conical Tilt Image Count
Number of images used in random conical tilt method
Random Conical Tilt Software
Software used for random conical tilt reconstruction
Starting Model Type
Type of model used to start reconstruction (e.g., random, known structure)
Starting Model Type (facet)
Type of model used to start reconstruction (e.g., random, known structure)
Starting Model Type (suggest)
Type of model used to start reconstruction (e.g., random, known structure)
Status history annotator
Name or identifier of the annotator responsible for a past status change in the entry’s history.
Current status (text) (facet)
Human-readable name corresponding to the current status code.
Standard Deviation
Standard deviation of voxel density or intensity, aggregated from any deposited map (primary, half-map, additional, or …
Structure determination method
Method used to determine the 3D structure (e.g. single particle analysis, tomography, crystallography).
Structure type (suggest)
Type of molecular structure (e.g. protein, RNA, DNA, complex).
Number of Images Used in Extraction
Number of images used in subtomogram extraction
Subtomogram Reference Model
Reference model used for subtomogram extraction
Subtomogram Extraction Software
Software used for subtomogram extraction
Subtomogram Extraction Software (facet)
Software used for subtomogram extraction
Subtomogram Extraction Software (suggest)
Software used for subtomogram extraction
Number of Tomograms
Number of tomograms used for subtomogram extraction
Sugar embedding material
Type of sugar used for embedding or stabilization of the specimen (e.g. trehalose, sucrose).
Taxonomy Superkingdom
Name of the superkingdom to which the sample organism belongs (e.g., Bacteria, Eukaryota, Archaea).
Symmetry Determination Software
Software used to determine particle symmetry
Symmetry Determination Software (facet)
Software used to determine particle symmetry
Symmetry Determination Software (suggest)
Software used to determine particle symmetry
Synthetic flag
Boolean indicating whether the macromolecule is synthetically produced.
Synthetic source cellular location
Cellular location of the synthetic source.
Synthetic source NCBI taxonomy code
NCBI taxonomy identifier of the synthetic source organism.
