7UBB | pdb_00007ubb

Structure of RecT protein from Listeria innoccua phage A118 in complex with 83-mer ssDNA

ELECTRON MICROSCOPY

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Sample
RecT protein from Listeria innocua phage A118, complexed with and 83-mer ssDNA

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	1.5 second blot time. Ted Pella 595 filter paper.

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	180965
Reported Resolution (Å)	4.5
Resolution Method	FSC 0.143 CUT-OFF
Other Details	The final resolution with a tight mask was 4.5 Angstrom
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1
Refinement Space	REAL
Refinement Protocol	AB INITIO MODEL
Refinement Target
Overall B Value
Fitting Procedure
Details	Phenix Real Space Refinement was by rigid body refinement of the eight different subunits. Due to the limited resolution, the refinement was limited to rigid body only.

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

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	FEI TITAN KRIOS
Minimum Defocus (nm)	3500
Maximum Defocus (nm)	1000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	81000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
IMAGE ACQUISITION	EPU
CTF CORRECTION	cryoSPARC	2.15.0
MODEL FITTING	Coot	0.8.7
RECONSTRUCTION	cryoSPARC	2.15.0
MODEL REFINEMENT	PHENIX	1.20.1-4487

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION	Patch CTD estimation was implemented in cryoSPARC with am amplitude contrast of 0.1	1000