EMD-2069

Single-particle
15.5 Å
EMD-2069
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Deposition: 06/04/2012
Map released: 17/04/2013
Last modified: 26/03/2014
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-2069
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3D volume (map.gz) Experimental metadata (xml)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
EMICSS annotations (xml)

Octameric structure of IMPDH from Pseudomonas aeruginosa in its APO form

EMD-2069

Single-particle
15.5 Å
EMD-2069
3D View Gallery
Deposition: 06/04/2012
Map released: 17/04/2013
Last modified: 26/03/2014
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 1 mg/mL
Buffer
pH: 8.0
Details: 20 mM potassium phosphate pH 8 and 0.1 M KCl
Grid
Details: Quantifoil R2.2, glow discharged
Vitrification
Cryogen name: ETHANE
Chamber humidity: 98%
Chamber temperature: 102.15 K
Instrument: GATAN CRYOPLUNGE 3
Method: Blot for 1 second
Microscopy [1]
Microscope: JEOL 2200FS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
Nominal CS: 2.0 mm
Nominal defocus: 1.4 µm - 2.5 µm
Nominal magnification: 100000.0
Calibrated magnification: 130137.0
Specimen holder model: GATAN LIQUID NITROGEN
Alignment procedure: LEGACY (Astigmatism: Objective lens astigmatism was corrected at 200,000 times magnification, Electron beam tilt params: )
Details: Weak beam illumination
Temperature
Minimum: 93.15 K
Average: 95.15 K
Maximum: 96.15 K
Specialist optics
Energy filter
Name: JEOL
Lower energy threshold: 0.0 eV
Upper energy threshold: 20.0 eV
Image Recording [1]
Detector category: CCD
Detector model: GENERIC GATAN (4k x 4k)
Number of real images: 74
Average electron dose per image: 18 e/Å2
Details: Images recorded with the 4K X 4K slow-scan CCD camera (Gatan inc.), which explains why the nominal magnification is 100000 and 130137 when calibrated on the camera.
Image processing [1]
Details: The particles were selected using an semi-automatic selection program (boxer)
Final reconstruction
Resolution: 15.5 Å ( BY AUTHOR)
Resolution method: FSC 0.5 CUT-OFF
Number of images used: 10625
Details:
⌯ Applied Symmetry
Point group: D4
Software [1]
Name Version Details
IMAGIC, FREALIGN - -
CTF correction
Details:Each particle
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Cryo-EM map of IMPDH from Pseudomonas Aeruginosa at 15.5A resolution in its APO conformation
Details: ::::EMDATABANK.org::::EMD-2069::::
⬡ Geometry
X Y Z
Dimensions 150 150 150
Origin 0 0 0
Spacing 150 150 150
Voxel size 2.3 Å 2.3 Å 2.3 Å
Contour list
Primary Level Source
True 45.0 AUTHOR