3J67 | pdb_00003j67

Structural mechanism of the dynein powerstroke (post-powerstroke state)


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4AKI 
Sample
inactive sea urchin sperm flagella
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentHOMEMADE PLUNGER
Cryogen NameETHANE
Sample Vitrification DetailsBlot for 1.5-2.5 seconds before plunging in liquid ethane.
3D Reconstruction
Reconstruction MethodTOMOGRAPHY
Number of Particles
Reported Resolution (Å)34
Resolution MethodFSC 0.5 CUT-OFF
Other DetailsFinal maps were calculated by averaging 1100 particles from 9 tomograms. 1100 axonemal repeats (96 nm long) from 9 tomograms (reconstructed using fidu ...Final maps were calculated by averaging 1100 particles from 9 tomograms. 1100 axonemal repeats (96 nm long) from 9 tomograms (reconstructed using fiducial alignment and weighted backprojection, IMOD software, Kremer et al. 1996) were aligned and averaged using the PEET software (bio3d.colorado.edu, Nicastro et al. 2006).
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1 (4AKI)
Refinement Space
Refinement ProtocolRIGID BODY FIT
Refinement TargetCross-correlation coefficient
Overall B Value
Fitting Procedure
DetailsREFINEMENT PROTOCOL--rigid body DETAILS--Initial local fitting was done using Chimera and then manual adjustment was performed.
Data Acquisition
Detector TypeGENERIC GATAN (2k x 2k)
Electron Dose (electrons/Å**2)100
Imaging Experiment1
Date of Experiment2012-04-28
Temperature (Kelvin)80
Microscope ModelFEI TECNAI F30
Minimum Defocus (nm)6000
Maximum Defocus (nm)8000
Minimum Tilt Angle (degrees)-65
Maximum Tilt Angle (degrees)65
Nominal CS
Imaging ModeBRIGHT FIELD
Specimen Holder ModelGATAN LIQUID NITROGEN
Nominal Magnification13500
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
RECONSTRUCTIONIMOD
RECONSTRUCTIONPEET