7UB2
Structure of RecT protein from Listeria innoccua phage A118 in complex with 83-mer annealed duplex
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 19.6259 |
f_angle_d | 0.5056 |
f_chiral_restr | 0.0393 |
f_bond_d | 0.0024 |
f_plane_restr | 0.0022 |
Sample |
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RecT protein from Listeria innocua phage A118, complexed with two complementary strands of ssDNA that were added to the protein sequentially |
Specimen Preparation | |
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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 | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 390000 |
Reported Resolution (Å) | 3.4 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | Tight Mask FSC resolution was 3.4; No mask FSC resolution was 4.3 |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 | ||||
Refinement Space | REAL | ||||
Refinement Protocol | AB INITIO MODEL | ||||
Refinement Target | |||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | Phenix Real Space Refinement included secondary restraints and 10-fold NCS constraints. |
Data Acquisition | |||||||||
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Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 66 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 1000 |
Maximum Defocus (nm) | 3500 |
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 | ||||
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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 |