rsKiiro pump dump probe structure by TR-SFX
Serial Crystallography (SX)
Crystallization
| Crystalization Experiments |
|---|
| ID | Method | pH | Temperature | Details |
|---|
| 1 | BATCH MODE | | 293 | 0.2 M LITHIUM SULFATE 0.1 M TRIS-CL PH 8.5 23-30% PEG 3350 |
| Crystal Properties |
|---|
| Matthews coefficient | Solvent content |
|---|
| 2.28 | 45.94 |
Crystal Data
| Unit Cell |
|---|
| Length ( Å ) | Angle ( ˚ ) |
|---|
| a = 39.34 | α = 90 |
| b = 74.01 | β = 90 |
| c = 78.62 | γ = 90 |
| Symmetry |
|---|
| Space Group | P 21 21 21 |
|---|
Diffraction
| Diffraction Experiment |
|---|
| ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol |
|---|
| 1 | 1 | x-ray | 293 | PIXEL | CS-PAD CXI-1 | | 2018-02-02 | M | SINGLE WAVELENGTH |
| Radiation Source |
|---|
| ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
|---|
| 1 | FREE ELECTRON LASER | SLAC LCLS BEAMLINE CXI | 1.305 | SLAC LCLS | CXI |
Serial Crystallography
| Sample delivery method |
|---|
| Diffraction ID | Description | Sample Delivery Method |
|---|
| 1 | | injection |
| Measurement |
|---|
| Diffraction ID | Pulse Duration | Pulse Repetition Rate | Focal Spot Size | Pulse Energy | Photons Per Pulse |
|---|
| 1 | 4 (fs) | 120 | 1 | 9.5 (KeV) | |
Data Collection
| Overall |
|---|
| ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | CC (Half) | R Split (All) | Net I Over Average Sigma (I) | Redundancy | Number Reflections (All) | Number Reflections (Observed) | Observed Criterion Sigma (F) | Observed Criterion Sigma (I) | B (Isotropic) From Wilson Plot |
|---|
| 1 | 1.31 | 19 | 100 | 0.99 | 0.1219 | 4.566 | 157 | | 51252 | | | 19.87 |
| Highest Resolution Shell |
|---|
| ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | CC (Half) | R Split (All) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) |
|---|
| 1 | 1.31 | 1.34 | | | 0.05 | 3.5 | | | |
Refinement
| Statistics |
|---|
| Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work (Depositor) | R-Work (DCC) | R-Free (Depositor) | R-Free (DCC) | R-Free Selection Details | Mean Isotropic B |
|---|
| X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | 5OQE | 1.31 | 11.99 | 47184 | 2456 | 88.64 | 0.41867 | 0.41696 | 0.27 | 0.45237 | 0.27 | RANDOM | 13.329 |
| Temperature Factor Modeling |
|---|
| Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] |
|---|
| -0.67 | | | 0.47 | | 0.21 |
| RMS Deviations |
|---|
| Key | Refinement Restraint Deviation |
|---|
| r_dihedral_angle_2_deg | 30.284 |
| r_dihedral_angle_4_deg | 24.827 |
| r_dihedral_angle_3_deg | 17.115 |
| r_dihedral_angle_1_deg | 7.052 |
| r_long_range_B_refined | 6.052 |
| r_long_range_B_other | 5.895 |
| r_scangle_other | 2.024 |
| r_angle_refined_deg | 1.655 |
| r_mcangle_it | 1.509 |
| r_mcangle_other | 1.509 |
| RMS Deviations |
|---|
| Key | Refinement Restraint Deviation |
|---|
| r_dihedral_angle_2_deg | 30.284 |
| r_dihedral_angle_4_deg | 24.827 |
| r_dihedral_angle_3_deg | 17.115 |
| r_dihedral_angle_1_deg | 7.052 |
| r_long_range_B_refined | 6.052 |
| r_long_range_B_other | 5.895 |
| r_scangle_other | 2.024 |
| r_angle_refined_deg | 1.655 |
| r_mcangle_it | 1.509 |
| r_mcangle_other | 1.509 |
| r_angle_other_deg | 1.297 |
| r_scbond_it | 1.255 |
| r_scbond_other | 1.255 |
| r_mcbond_it | 0.909 |
| r_mcbond_other | 0.909 |
| r_chiral_restr | 0.068 |
| r_bond_refined_d | 0.009 |
| r_gen_planes_refined | 0.007 |
| r_gen_planes_other | 0.003 |
| r_bond_other_d | 0.001 |
| r_nbd_refined | |
| r_nbd_other | |
| r_nbtor_refined | |
| r_nbtor_other | |
| r_xyhbond_nbd_refined | |
| r_xyhbond_nbd_other | |
| r_metal_ion_refined | |
| r_metal_ion_other | |
| r_symmetry_vdw_refined | |
| r_symmetry_vdw_other | |
| r_symmetry_hbond_refined | |
| r_symmetry_hbond_other | |
| r_symmetry_metal_ion_refined | |
| r_symmetry_metal_ion_other | |
| r_scangle_it | |
| r_rigid_bond_restr | |
| r_sphericity_free | |
| r_sphericity_bonded | |
| Non-Hydrogen Atoms Used in Refinement |
|---|
| Non-Hydrogen Atoms | Number |
|---|
| Protein Atoms | 1723 |
| Nucleic Acid Atoms | |
| Solvent Atoms | 161 |
| Heterogen Atoms | 20 |
Software
| Software |
|---|
| Software Name | Purpose |
|---|
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| CrystFEL | data reduction |
| CrysalisPro | data scaling |
| MOLREP | phasing |