8EZ9 | pdb_00008ez9

Dimeric complex of DNA-PKcs

ELECTRON MICROSCOPY

---

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	7.702
f_angle_d	0.883
f_chiral_restr	0.048
f_plane_restr	0.006
f_bond_d	0.004

Sample
dimer of DNA-PKcs

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	64775
Reported Resolution (Å)	5.67
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C2

Map-Model Fitting and Refinement
Id	1
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	CC
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K3 (6k x 4k)
Electron Dose (electrons/Å**2)	65

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	2000
Maximum Defocus (nm)	4000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification	105000
Calibrated Magnification	105000
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	Gautomatch	0.8
IMAGE ACQUISITION	cryoSPARC	2
CTF CORRECTION	RELION	3.1.3
MODEL FITTING	ISOLDE	1.4
INITIAL EULER ASSIGNMENT	RELION	3.1.3
FINAL EULER ASSIGNMENT	RELION	3.1.3
CLASSIFICATION	RELION	3.1.3
RECONSTRUCTION	RELION	3.1.3
MODEL REFINEMENT	ISOLDE	1.4

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		1587734