Structural basis of the activation of the CC chemokine receptor 5 by a chemokine agonist
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 4.85 |
| f_angle_d | 0.521 |
| f_chiral_restr | 0.039 |
| f_bond_d | 0.003 |
| f_plane_restr | 0.003 |
| Sample |
|---|
| [6P4]CCL5-CCR5-Gi-Fab16 |
| Sample Components |
| Guanine nucleotide-binding protein G(i) subunit alpha-1 |
| Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 |
| C-C chemokine receptor type 5 |
| Guanine nucleotide-binding protein G(T) subunit gamma-T1 |
| C-C motif chemokine 5(0-68) |
| Fab |
| 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 | 345458 |
| Reported Resolution (Å) | 3.15 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (5UIW, 5KDO, 5KDO, 5KDO) | 2 (5UIW, 6QNK, 6QNK) | |||
| Refinement Space | REAL | REAL | |||
| Refinement Protocol | FLEXIBLE FIT | RIGID BODY FIT | |||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 49 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | TFS GLACIOS |
| Minimum Defocus (nm) | |
| Maximum Defocus (nm) | |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| MODEL FITTING | Coot | 0.9 |
| RECONSTRUCTION | cryoSPARC | 3.10 |
| MODEL REFINEMENT | PHENIX | 1.19 |
| MODEL FITTING | UCSF Chimera | |
| MODEL REFINEMENT | PHENIX | 1.19 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| NONE | ||||
