7UZZ | pdb_00007uzz

Staphylococcus epidermidis RP62a CRISPR tall effector complex

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6NBT
experimental model	PDB	6NBU

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	16.321
f_angle_d	0.763
f_chiral_restr	0.045
f_bond_d	0.007
f_plane_restr	0.005

Sample
Staphylococcus epidermidis RP62a CRISPR tall effector complex

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	SPT LABTECH CHAMELEON
Cryogen Name	ETHANE
Sample Vitrification Details	Grids were prepared at the National Center for CryoEM Access and Training (NCCAT) using a Chameleon (SPT Labtech) blotless system. 300 mesh nanowire grids with multi-hole pattern carbon film and a thin layer of gold coating (~ 5 nm) (SPT Labtech)were used

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	101620
Reported Resolution (Å)	4.45
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (6NBT, 6NBT, 6NBT, 6NBT, 6NBU, 6NBU, 6NBU)
Refinement Space	REAL
Refinement Protocol	OTHER
Refinement Target
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K3 (6k x 4k)
Electron Dose (electrons/Å**2)	61.07

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	800
Maximum Defocus (nm)	2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
Calibrated Magnification	46772
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	cryoSPARC
IMAGE ACQUISITION	Leginon
CTF CORRECTION	cryoSPARC
MODEL FITTING	UCSF Chimera
MODEL REFINEMENT	PHENIX	1.18.2
INITIAL EULER ASSIGNMENT	cryoSPARC
FINAL EULER ASSIGNMENT	cryoSPARC
CLASSIFICATION	cryoSPARC
RECONSTRUCTION	cryoSPARC

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		1982259