7OTQ
Cryo-EM structure of ALC1/CHD1L bound to a PARylated nucleosome
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 24.9095 |
| f_angle_d | 0.757 |
| f_chiral_restr | 0.0482 |
| f_plane_restr | 0.0122 |
| f_bond_d | 0.0042 |
| Sample |
|---|
| ALC1/CHD1L bound to a PARylated nucleosome |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | 3 uL were applied on grid and immediately blotted for 2.5 s at blot force 0. |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 5487 |
| Reported Resolution (Å) | 4.8 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | Non-uniform refinement in cryoSPARC 3.2.0. |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (6RYR, 6JYL) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | FLEXIBLE FIT | ||||
| Refinement Target | Real-space CC | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 45 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | TFS KRIOS |
| Minimum Defocus (nm) | |
| Maximum Defocus (nm) | |
| 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 | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| IMAGE ACQUISITION | EPU | 2.6.1 |
| CTF CORRECTION | CTFFIND | 4.1.9 |
| MODEL FITTING | ISOLDE | 1.0 |
| INITIAL EULER ASSIGNMENT | RELION | 3.1.1 |
| FINAL EULER ASSIGNMENT | cryoSPARC | 3.2.0 |
| CLASSIFICATION | cryoSPARC | 3.2.0 |
| RECONSTRUCTION | cryoSPARC | 3.2.0 |
| MODEL REFINEMENT | PHENIX | 1.19.2 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 3321590 | |||
