IIMS (24th September 2001)

METADESCRIPTORS FOR 3D-EM DATA PDB TEMPLATE


ASSEMBLY 
 _assembly.id
 _assembly.entry_id
 _assembly.name
 _assembly.aggregation_state
 _assembly.composition
 _assembly.num_components
 _assembly.mol_wt_exp
 _assembly.mol_wt_theo
 _assembly.mol_wt_method
 _assembly.details
ENTITY_ASSEMBLY 
 _entity_assembly.id
 _entity_assembly.assembly_id
 _entity_assembly.type
 _entity_assembly.name
 _entity_assembly.details
 _entity_assembly.go_id
 _entity_assembly.ipr_id
 _entity_assembly.synonym
ENTITY_ASSEMBLY_LIST 
 _entity_assembly_list.id
 _entity_assembly_list.entity_id
 _entity_assembly_list.entity_assembly_id
 _entity_assembly_list.oligomeric_details
 _entity_assembly_list.number_of_copies
VIRUS_ENTITY 
 _virus_entity.id
 _virus_entity.virus_host_category
 _virus_entity.virus_host_species
 _virus_entity.virus_host_growth_cell
 _virus_entity.virus_type
 _virus_entity.virus_isolate
 _virus_entity.ictvdb_id
 _virus_entity.entity_assembly_id
 _virus_entity.enveloped
 _virus_entity.empty
ICOS_VIRUS_SHELLS 
 _icos_virus_shells.virus_entity_id
 _icos_virus_shells.id
 _icos_virus_shells.shell_diameter
 _icos_virus_shells.triangulation_number
EM_SAMPLE_PREPARATION 
 _em_sample_preparation.entry_id
 _em_sample_preparation.id
 _em_sample_preparation.ph
 _em_sample_preparation.buffer_id
 _em_sample_preparation.sample_concentration
 _em_sample_preparation.2d_crystal_grow_id
 _em_sample_preparation.support_id
EM_SAMPLE_SUPPORT 
 _em_sample_support.id
 _em_sample_support.film_material
 _em_sample_support.method
 _em_sample_support.grid_material
 _em_sample_support.grid_mesh_size
 _em_sample_support.grid_type
 _em_sample_support.pretreatment
 _em_sample_support.details
 _em_sample_support.citation_id
2D_CRYSTAL_GROW 
 _2d_crystal_grow.id
 _2d_crystal_grow.method
 _2d_crystal_grow.apparatus
 _2d_crystal_grow.atmosphere
 _2d_crystal_grow.pH
 _2d_crystal_grow.temp
 _2d_crystal_grow.time
 _2d_crystal_grow.buffer_id
 _2d_crystal_grow.details
 _2d_crystal_grow.number_2d_crystals
 _2d_crystal_grow.mean_2d_crystal_size
 _2d_crystal_grow.citation_id
BUFFER 
 _buffer.id
 _buffer.name
 _buffer.details
BUFFER_COMPONENTS 
 _buffer_components.id
 _buffer_components.buffer_id
 _buffer_components.name
 _buffer_components.volume
 _buffer_components.conc
 _buffer_components.details
EM_VITRIFICATION 
 _em_vitrification.id
 _em_vitrification.sample_preparation_id
 _em_vitrification.cryogen_name
 _em_vitrification.humidity
 _em_vitrification.temp
 _em_vitrification.instrument
 _em_vitrification.method
 _em_vitrification.time_resolved_state
 _em_vitrification.citation_id
 _em_vitrification.details
EM_IMAGING 
 _em_imaging.entry_id
 _em_imaging.id
 _em_imaging.sample_support_id
 _em_imaging.detector_id
 _em_imaging.scans_id
 _em_imaging.microscope_model
 _em_imaging.specimen_holder_type
 _em_imaging.specimen_holder_model
 _em_imaging.details
 _em_imaging.date
 _em_imaging.accelerating_voltage
 _em_imaging.illumination_mode
 _em_imaging.mode
 _em_imaging.nominal_cs
 _em_imaging.nominal_defocus_min
 _em_imaging.nominal_defocus_max
 _em_imaging.tilt_angle_min
 _em_imaging.tilt_angle_max
 _em_imaging.nominal_magnification
 _em_imaging.calibrated_magnification
 _em_imaging.electron_source
 _em_imaging.electron_dose
 _em_imaging.energy_filter
 _em_imaging.energy_window
 _em_imaging.citation_id
 _em_imaging.temperature
 _em_imaging.detector_distance
 _em_imaging.recording_temperature_minimum
 _em_imaging.recording_temperature_maximum
EM_DETECTOR 
 _em_detector.id
 _em_detector.details
 _em_detector.type
 _em_detector.detective_quantum_efficiency
EM_IMAGE_SCANS 
 _em_image_scans.entry_id
 _em_image_scans.id
 _em_image_scans.number_digital_images
 _em_image_scans.details
 _em_image_scans.scanner_name
 _em_image_scans.scanner_model
 _em_image_scans.sampling_size
 _em_image_scans.od_range
 _em_image_scans.quant_bit_size
 _em_image_scans.citation_id
EM_2D_PROJECTION_SELECTION 
 _em_2d_projection_selection.entry_id
 _em_2d_projection_selection.num_particles
 _em_2d_projection_selection.software_id
 _em_2d_projection_selection.method
 _em_2d_projection_selection.details
 _em_2d_projection_selection.citation_id
EM_EULER_ANGLE_DISTRIBUTION 
 _em_euler_angle_distribution.id
 _em_euler_angle_distribution.entry_id
 _em_euler_angle_distribution.alpha
 _em_euler_angle_distribution.beta
 _em_euler_angle_distribution.gamma
EM_3D_RECONSTRUCTION 
 _em_3d_reconstruction.entry_id
 _em_3d_reconstruction.id
 _em_3d_reconstruction.method
 _em_3d_reconstruction.citation_id
 _em_3d_reconstruction.details
 _em_3d_reconstruction.resolution
 _em_3d_reconstruction.resolution_method
 _em_3d_reconstruction.magnification_calibration
 _em_3d_reconstruction.ctf_correction_method
 _em_3d_reconstruction.nominal_pixel_size
 _em_3d_reconstruction.actual_pixel_size
3D_FITTING 
 _3d_fitting.id
 _3d_fitting.entry_id
 _3d_fitting.method
 _3d_fitting.target_criteria
 _3d_fitting.software_id
 _3d_fitting.details
 _3d_fitting.overall_b_value
 _3d_fitting.ref_space
 _3d_fitting.ref_protocol
3D_FITTING_LIST 
 _3d_fitting_list.id
 _3d_fitting_list.3d_fitting_id
 _3d_fitting_list.pdb_entry
 _3d_fitting_list.pdb_chain_id

MAP AND IMAGE DATA ITEMS FOR EBI-MSD ONLY


IIMS_MAP 
 _iims_map.id
 _iims_map.3d_reconstruction_id
 _iims_map.imaging_id
 _iims_map.date
 _iims_map.array_id
 _iims_map.binary_id
 _iims_map.num_columns
 _iims_map.num_rows
 _iims_map.num_sections
 _iims_map.mode
 _iims_map.num_first_column
 _iims_map.num_first_row
 _iims_map.num_first_section
 _iims_map.num_intervals_x
 _iims_map.num_intervals_y
 _iims_map.num_intervals_z
 _iims_map.cell_length_a
 _iims_map.cell_length_b
 _iims_map.cell_length_c
 _iims_map.cell_length_a_esd
 _iims_map.cell_length_b_esd
 _iims_map.cell_length_c_esd
 _iims_map.cell_angle_alpha
 _iims_map.cell_angle_beta
 _iims_map.cell_angle_gamma
 _iims_map.volume
 _iims_map.column_axis
 _iims_map.row_axis
 _iims_map.section_axis
 _iims_map.min_density
 _iims_map.max_density
 _iims_map.mean_density
 _iims_map.rms_from_mean_density
 _iims_map.space_group_name_H-M
 _iims_map.symmetry_Int_Tables_number
 _iims_map.symmetry_cell_setting
 _iims_map.skew_flag
 _iims_map.details
 _iims_map_skew.map_id
 _iims_map_skew.matrix[1][1]
 _iims_map_skew.matrix[1][2]
 _iims_map_skew.matrix[1][3]
 _iims_map_skew.matrix[2][1]
 _iims_map_skew.matrix[2][2]
 _iims_map_skew.matrix[2][3]
 _iims_map_skew.matrix[3][1]
 _iims_map_skew.matrix[3][2]
 _iims_map_skew.matrix[3][3]
 _iims_map_skew.vector[1]
 _iims_map_skew.vector[2]
 _iims_map_skew.vector[3]
 _iims_map.diff_density_max
 _iims_map.diff_density_max_esd
 _iims_map.diff_density_min
 _iims_map.diff_density_min_esd
 _iims_map.diff_density_rms
 _iims_map.diff_density_rms_esd
IIMS_MAP_SYMMETRY 
 _iims_map_symmetry.map_id
 _iims_map_symmetry.equiv.id
 _iims_map_symmetry.equiv_pos_as_xyz
IIMS_ORTHOGONAL_SLICES 
IIMS_FIGURE 




The project is funded by the European Commission as the IIMS,
contract-no. QLRI-CT-2000-31237 under the RTD programme
"Quality of Life and Management of Living Resources"