4V61 | pdb_00004v61

Homology model for the Spinach chloroplast 30S subunit fitted to 9.4A cryo-EM map of the 70S chlororibosome.


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2XYZ 
experimental modelPDB 2ZXY 
Sample
spinach 70S chloro-ribosome
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentHOMEMADE PLUNGER
Cryogen NameETHANE
Sample Vitrification Details5 microliters applied to the grid then blotted for 3 seconds with Whatman number 1 filter paper before plunging in liquid ethane.
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles86370
Reported Resolution (Å)9.4
Resolution Method
Other DetailsAn 11.5 A E.coli 70S ribosome map was used as initial reference and then resulting 18 A map from reconstruction of 70S chloro-ribosome was used as a r ...An 11.5 A E.coli 70S ribosome map was used as initial reference and then resulting 18 A map from reconstruction of 70S chloro-ribosome was used as a reference for iterative refinement
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1 (2XYZ, 2ZXY)
Refinement SpaceREAL
Refinement ProtocolRIGID BODY FIT
Refinement TargetBest visual fit using the program O
Overall B Value
Fitting Procedure
DetailsMETHOD--Cross-Correlation based manual fitting in O REFINEMENT PROTOCOL--Rigid Body
Data Acquisition
Detector TypeKODAK SO-163 FILM
Electron Dose (electrons/Å**2)20
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)93
Microscope ModelFEI TECNAI F20
Minimum Defocus (nm)700
Maximum Defocus (nm)3500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification50000
Calibrated Magnification50760
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)200
Imaging Details
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
CTF correction for each Micrograph