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PDB Id
Uniprot Id
Source Organism
Host Organism
Protein Name
Method
Summary
Structure Feature
Experiment
Ligands & Environment
7ODE
pdb_00007ode
10.2210/pdb7ode/pdb
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FASTA
PDB
MMCIF
Binary MMCIF
XML
Structure Factors
Full Validation Report
Validation File (XML)
Validation File (CIF)
FASTA Zipped(.gz)
PDB Zipped(.gz)
MMCIF Zipped(.gz)
Binary MMCIF Zipped(.gz)
Structure Factors Zipped(.gz)
Validation File Zipped (.xml.gz)
Validation File Zipped (.cif.gz)
ELECTRON MICROSCOPY
Sample
50S LiCl core particle
Specimen Preperation
Sample Aggregation State
PARTICLE
Vitrification Instrument
FEI VITROBOT MARK IV
Cryogen Name
ETHANE
Sample Vitrification Details
continuous carbon, 3 microL of sample, incubate for 30 seconds, blot for 3.5 seconds
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
384374
Reported Resolution (Å)
2.84
Resolution Method
FSC 0.143 CUT-OFF
Other Details
?
Refinement Type
Symmetry Type
POINT
Map-Model Fitting and Refinement
ID
1
Refinement Space
REAL
Refinement Protocol
FLEXIBLE FIT
Refinement Target
correlation coefficient
Overall B Value
69.21
Fitting Procedure
?
Details
Low-resolution regions were modeled at a lower contour level.
Data Acquisition
Detector Type
FEI FALCON III (4k x 4k)
Electron Dose (electrons/Å
2
)
42
Imaging Experiment
Date of Experiment
?
Temprature (Kelvin)
Microscope Model
FEI TITAN KRIOS
Minimum Defocus (nm)
?
Maximum Defocus (nm)
?
Minimum Tilt Angle (degrees)
?
Maximum Tilt Angle (degrees)
?
Nominal CS
2.7
Imaging Mode
BRIGHT FIELD
Specimen Holder Model
FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
75000
Calibrated Magnification
?
Source
FIELD EMISSION GUN
Acceleration Voltage (kV)
300
Imaging Details
The sample stage was tilted at 0, 15 or 30 degrees
Imaging Experiment
Task
Software Package
Version
PARTICLE SELECTION
RELION
3.0
IMAGE ACQUISITION
EPU
?
CTF CORRECTION
Gctf
?
CTF CORRECTION
RELION
3.1
MODEL FITTING
UCSF Chimera
1.14
MODEL FITTING
PHENIX
1.19
MODEL FITTING
Coot
0.8
FINAL EULER ASSIGNMENT
RELION
3.1
RECONSTRUCTION
RELION
3.1
MODEL REFINEMENT
PHENIX
1.19
Image Processing
CTF Correction Type
CTF Correction Details
Number of Particles Selected
Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION
?
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