9Q9K | pdb_00009q9k

Cryo-EM structure of human Mre11-Rad50 (MR) complex bound to DNA and telomeric factor TRF2 fragment (438-542)


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
in silico modelAlphaFold 
Sample
MR-TRF2(438-542)-DNA complex
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentLEICA PLUNGER
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles274928
Reported Resolution (Å)2.59
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 Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeFEI FALCON IV (4k x 4k)
Electron Dose (electrons/Å**2)40
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelTFS KRIOS
Minimum Defocus (nm)500
Maximum Defocus (nm)2600
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcryoSPARC4.6.2
IMAGE ACQUISITIONEPU3.9.1.8206
CTF CORRECTIONcryoSPARC4.6.2
MODEL FITTINGUCSF ChimeraX1.9
MODEL REFINEMENTPHENIX1.20.1
INITIAL EULER ASSIGNMENTcryoSPARC4.6.2
FINAL EULER ASSIGNMENTcryoSPARC4.6.2
CLASSIFICATIONcryoSPARC4.6.2
RECONSTRUCTIONcryoSPARC4.6.2
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION