PDBx:em_imaging

Element Information

Model

ALL(PDBx:accelerating_voltage{0,1} PDBx:astigmatism{0,1} PDBx:calibrated_magnification{0,1} PDBx:citation_id{0,1} PDBx:date{0,1} PDBx:details{0,1} PDBx:detector_distance{0,1} PDBx:detector_id PDBx:electron_beam_tilt_params{0,1} PDBx:electron_dose{0,1} PDBx:electron_source{0,1} PDBx:energy_filter{0,1} PDBx:energy_window{0,1} PDBx:illumination_mode{0,1} PDBx:microscope_id{0,1} PDBx:microscope_model{0,1} PDBx:mode{0,1} PDBx:nominal_cs{0,1} PDBx:nominal_defocus_max{0,1} PDBx:nominal_defocus_min{0,1} PDBx:nominal_magnification{0,1} PDBx:recording_temperature_maximum{0,1} PDBx:recording_temperature_minimum{0,1} PDBx:sample_support_id PDBx:scans_id PDBx:specimen_holder_model{0,1} PDBx:specimen_holder_type{0,1} PDBx:temperature{0,1} PDBx:tilt_angle_max{0,1} PDBx:tilt_angle_min{0,1})
Children: PDBx:accelerating_voltage, PDBx:astigmatism, PDBx:calibrated_magnification, PDBx:citation_id, PDBx:date, PDBx:details, PDBx:detector_distance, PDBx:detector_id, PDBx:electron_beam_tilt_params, PDBx:electron_dose, PDBx:electron_source, PDBx:energy_filter, PDBx:energy_window, PDBx:illumination_mode, PDBx:microscope_id, PDBx:microscope_model, PDBx:mode, PDBx:nominal_cs, PDBx:nominal_defocus_max, PDBx:nominal_defocus_min, PDBx:nominal_magnification, PDBx:recording_temperature_maximum, PDBx:recording_temperature_minimum, PDBx:sample_support_id, PDBx:scans_id, PDBx:specimen_holder_model, PDBx:specimen_holder_type, PDBx:temperature, PDBx:tilt_angle_max, PDBx:tilt_angle_min

Attributes

QName Type Fixed Default Use Inheritable Annotation
entry_id xsd:string required 
This data item is a pointer to attribute id in category entry in the ENTRY category.
id xsd:string required 
The value of attribute id in category em_imaging must uniquely identify
each imaging experiment.

Source 

<xsd:element name="em_imaging" minOccurs="0" maxOccurs="unbounded">
  <xsd:complexType>
    <xsd:all>
      <xsd:element name="accelerating_voltage" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">A value of accelerating voltage (in kV) used for imaging. 300</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:integer">
              <xsd:attribute fixed="kilovolts" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="astigmatism" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">astigmatism</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="calibrated_magnification" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:integer">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The magnification value obtained for a known standard just prior to, during or just after the imaging experiment. 61200</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="citation_id" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">This data item is a pointer to attribute id in category citation in the CITATION category.</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="date" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">Date (YYYY-MM-DD) of imaging experiment or the date at which a series of experiments began. 2001-05-08</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="details" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">Any additional imaging details. weak beam illumination</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="detector_distance" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The camera length (in millimetres). The camera length is the product of the objective focal length and the combined magnification of the intermediate and projector lenses when the microscope is operated in the diffraction mode.</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="millimetres" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="detector_id" minOccurs="1" maxOccurs="1" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The value of attribute detector_id in category em_imaging must uniquely identify the type of detector used in the experiment.</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="electron_beam_tilt_params" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">electron beam tilt params</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="electron_dose" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The electron dose received by the specimen (electrons per square angstrom). 0.9</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="electrons_angstrom_squared" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="electron_source" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The source of electrons. The electron gun. FIELD EMISSION GUN LAB6 TUNGSTEN HAIRPIN SCHOTTKY FIELD EMISSION GUN OTHER</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="energy_filter" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The type of energy filter spectrometer apparatus. FEI</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="energy_window" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The energy filter range in electron volts (eV)set by spectrometer. 0 - 15</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:string">
              <xsd:attribute fixed="electron_volts" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="illumination_mode" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The mode of illumination. FLOOD BEAM FLOOD BEAM LOW DOSE SPOT SCAN OTHER</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="microscope_id" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">This data item is a pointer to attribute id in category em_microscope in the EM_MICROSCOPE category.</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="microscope_model" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The name of the model of microscope. HITACHI H8100 HITACHI HF2000 HITACHI HF2000-UHR HITACHI H9000-UHR HITACHI H9000-NAR HITACHI 300KEV FEG HITACHI HU1250 HITACHI H-1500 JEOL 2000EX JEOL 2010HT JEOL 2010UHR JEOL 2010F JEOL 3010HT JEOL 3010UHR JEOL KYOTO-3000SFF JEOL 4000EX JEOL HAREM JEOL ARM-1000 JEOL KYOTO-1000 JEOL ARM-1250 FEI/PHILIPS CM120T FEI/PHILIPS CM200T FEI/PHILIPS CM20/ST FEI/PHILIPS CM20/SOPHIE FEI/PHILIPS CM200FEG/ST FEI/PHILIPS CM20/UT FEI/PHILIPS CM200FEG/UT FEI/PHILIPS CM30/T FEI/PHILIPS CM300FEG/T FEI/PHILIPS CM300FEG/HE FEI/PHILIPS CM30/ST FEI/PHILIPS CM300FEG/ST FEI/PHILIPS CM300FEG/UT FEI TECNAI 12 FEI TECNAI 20 FEI TECNAI F20 FEI TECNAI F30 FEI MORGAGNI</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="mode" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The mode of imaging. BRIGHT FIELD DARK FIELD DIFFRACTION OTHER</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="nominal_cs" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The spherical aberration coefficient (Cs) in millimetres, of the objective lens. 1.4</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="millimetres" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="nominal_defocus_max" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The maximum defocus value of the objective lens (in nanometres) used to obtain the recorded images. 5000</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="nanometres" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="nominal_defocus_min" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The minimum defocus value of the objective lens (in nanometres) used to obtain the recorded images. 1200</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="nanometres" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="nominal_magnification" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:integer">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The magnification indicated by the microscope readout. 60000</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="recording_temperature_maximum" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The specimen temperature maximum (degrees Kelvin) for the duration of imaging.</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="kelvins" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="recording_temperature_minimum" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The specimen temperature minimum (degrees Kelvin) for the duration of imaging.</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="kelvins" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="sample_support_id" minOccurs="1" maxOccurs="1" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">This data item is a pointer to attribute id in category em_sample_support in the EM_SAMPLE_SUPPORT category.</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="scans_id" minOccurs="1" maxOccurs="1" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The value of attribute scans_id in category em_imaging must uniquely identify the image_scans used in the experiment.</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="specimen_holder_model" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The name of the model of specimen holder used during imaging.</xsd:documentation>
        </xsd:annotation>
        <xsd:simpleType>
          <xsd:restriction base="xsd:string">
            <xsd:enumeration value="GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER"/>
            <xsd:enumeration value="GATAN CT3500 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER"/>
            <xsd:enumeration value="GATAN CT3500TR SINGLE TILT ROTATION LIQUID NITROGEN CRYO TRANSFER HOLDER"/>
            <xsd:enumeration value="GATAN 910 MULTI-SPECIMEN SINGLE TILT CRYO TRANSFER HOLDER"/>
            <xsd:enumeration value="GATAN 914 HIGH TILT LIQUID NITROGEN CRYO TRANSFER TOMOGRAPHY HOLDER"/>
            <xsd:enumeration value="GATAN 915 DOUBLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER"/>
            <xsd:enumeration value="GATAN UHRST 3500 SINGLE TILT ULTRA HIGH RESOLUTION NITROGEN COOLING HOLDER"/>
            <xsd:enumeration value="GATAN CHDT 3504 DOUBLE TILT HIGH RESOLUTION NITROGEN COOLING HOLDER"/>
            <xsd:enumeration value="GATAN HC 3500 SINGLE TILT HEATING/NITROGEN COOLING HOLDER"/>
            <xsd:enumeration value="GATAN HCHST 3008 SINGLE TILT HIGH RESOLUTION HELIUM COOLING HOLDER"/>
            <xsd:enumeration value="GATAN ULTST ULTRA LOW TEMPERATURE SINGLE TILT HELIUM COOLING HOLDER"/>
            <xsd:enumeration value="GATAN HCHDT 3010 DOUBLE TILT HIGH RESOLUTION HELIUM COOLING HOLDER"/>
            <xsd:enumeration value="GATAN ULTDT ULTRA LOW TEMPERATURE DOUBLE TILT HELIUM COOLING HOLDER"/>
            <xsd:enumeration value="FEI TITAN KRIOS AUTOGRID HOLDER"/>
            <xsd:enumeration value="GATAN HELIUM"/>
            <xsd:enumeration value="GATAN LIQUID NITROGEN"/>
            <xsd:enumeration value="HOME BUILD"/>
            <xsd:enumeration value="JEOL"/>
            <xsd:enumeration value="JEOL 3200FSC CRYOHOLDER"/>
            <xsd:enumeration value="JEM3200FSC CRYOHOLDER"/>
            <xsd:enumeration value="JEM3400FSC CRYOHOLDER"/>
            <xsd:enumeration value="PHILIPS ROTATION HOLDER"/>
            <xsd:enumeration value="SIDE ENTRY, EUCENTRIC"/>
            <xsd:enumeration value="OTHER"/>
          </xsd:restriction>
        </xsd:simpleType>
      </xsd:element>
      <xsd:element name="specimen_holder_type" minOccurs="0" maxOccurs="1" nillable="true" type="xsd:string">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The type of specimen holder used during imaging. cryo</xsd:documentation>
        </xsd:annotation>
      </xsd:element>
      <xsd:element name="temperature" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The mean specimen stage temperature (degrees Kelvin) during imaging in the microscope. 70</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="kelvins" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="tilt_angle_max" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The maximum angle at which the specimen was tilted to obtain recorded images. 70</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="degrees" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
      <xsd:element name="tilt_angle_min" minOccurs="0" maxOccurs="1" nillable="true">
        <xsd:annotation>
          <xsd:documentation xml:lang="en">The minimum angle at which the specimen was tilted to obtain recorded images. -70</xsd:documentation>
        </xsd:annotation>
        <xsd:complexType>
          <xsd:simpleContent>
            <xsd:extension base="xsd:decimal">
              <xsd:attribute fixed="degrees" name="units" type="xsd:string" use="optional"/>
            </xsd:extension>
          </xsd:simpleContent>
        </xsd:complexType>
      </xsd:element>
    </xsd:all>
    <xsd:attribute name="entry_id" use="required" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation xml:lang="en">This data item is a pointer to attribute id in category entry in the ENTRY category.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
    <xsd:attribute name="id" use="required" type="xsd:string">
      <xsd:annotation>
        <xsd:documentation xml:lang="en">The value of attribute id in category em_imaging must uniquely identify each imaging experiment.</xsd:documentation>
      </xsd:annotation>
    </xsd:attribute>
  </xsd:complexType>
</xsd:element>

Sample