7YYN

Mammalian Dicer in the dicing state with pre-miR-15a substrate


ELECTRON MICROSCOPY
Sample
Dicing state of mouse oocyte dicer with pre-miR-15a
Sample Components
59-nt precursor of miR-15a
Isoform 2 of Endoribonuclease Dicer
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification DetailsDescribed in STAR methods
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles84697
Reported Resolution (Å)6.21
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Map-Model Fitting and Refinement
Id1
Refinement SpaceREAL
Refinement ProtocolRIGID BODY FIT
Refinement TargetCorrelation coefficient
Overall B Value451.4
Fitting Procedure
DetailsInitial model for mouse oocyte Dicer was calculated using AlphaFold 2.0. Initial rigid body fitting was done using Chimera. Further refinement was don ...Initial model for mouse oocyte Dicer was calculated using AlphaFold 2.0. Initial rigid body fitting was done using Chimera. Further refinement was done using ISOLDE with distance restrains
Data Acquisition
Detector TypeGATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)55
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)1000
Maximum Defocus (nm)3500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcrYOLO1.7.5
CTF CORRECTIONcryoSPARCv3.3.1
MODEL FITTINGUCSF ChimeraX1.15
CLASSIFICATIONcryoSPARCv3.3.1
RECONSTRUCTIONcryoSPARCv3.3.1
MODEL REFINEMENTISOLDE1.1.0
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION230362