Structural insights into the exosite-mediated activation of Factor IX by Factor XIa using cryoEM
ELECTRON MICROSCOPY
| Sample |
|---|
| Complex of Factor XIa (FXIa) with Factor IX (FIX). |
| Sample Components |
| Activated coagulation Factor XI (FXIa) |
| Coagulation Factor IX (FIX) |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | Quantifoil 1.2/1.3 Gold ultrafoil - 300 mesh. Glow Discharge for 20 second using atmospheric Air |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 224103 |
| Reported Resolution (Å) | 3.4 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Number of Particles | 224103 |
| Reported Resolution (Å) | 3.4 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Number of Particles | 224103 |
| Reported Resolution (Å) | 3.4 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Number of Particles | 224103 |
| Reported Resolution (Å) | 3.4 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (6I58, 1NL0, 9ZqY) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | OTHER | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | Combined backbone trace, and ab-initio | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | FEI FALCON IV (4k x 4k) | FEI FALCON IV (4k x 4k) | FEI FALCON IV (4k x 4k) | FEI FALCON IV (4k x 4k) | FEI FALCON IV (4k x 4k) | ||||
| Electron Dose (electrons/Å**2) | 60 | 57.2 | 52.5 | 52.5 | 50 | ||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | TFS GLACIOS |
| Minimum Defocus (nm) | 1000 |
| Maximum Defocus (nm) | 2400 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | 2.7 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | 150000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 200 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | cryoSPARC | 4.7.1 |
| IMAGE ACQUISITION | EPU | |
| CTF CORRECTION | cryoSPARC | 4.7.1 |
| MODEL FITTING | UCSF ChimeraX | 1.10 |
| CLASSIFICATION | cryoSPARC | 4.7.1 |
| RECONSTRUCTION | cryoSPARC | 4.7.1 |
| PARTICLE SELECTION | cryoSPARC | 4.7.1 |
| CTF CORRECTION | cryoSPARC | 4.7.1 |
| CLASSIFICATION | cryoSPARC | 4.7.1 |
| RECONSTRUCTION | cryoSPARC | 4.7.1 |
| MODEL REFINEMENT | PHENIX | 1.21.2_5419 |
| MODEL REFINEMENT | Coot | 0.9.8.95 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 682170 | |||
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 682170 | |||
